-- dump date 20120504_140230 -- class Genbank::misc_feature -- table misc_feature_note -- id note 269482000001 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482000002 trimer interface [polypeptide binding]; other site 269482000003 active site 269482000004 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000005 S-adenosylmethionine binding site [chemical binding]; other site 269482000006 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 269482000007 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482000008 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482000009 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000010 sequence-specific DNA binding site [nucleotide binding]; other site 269482000011 salt bridge; other site 269482000012 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 269482000013 catalytic residues [active] 269482000014 catalytic nucleophile [active] 269482000015 Helix-turn-helix domains; Region: HTH; cl00088 269482000016 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482000017 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000018 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 269482000019 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 269482000020 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 269482000021 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 269482000022 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000023 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000024 non-specific DNA binding site [nucleotide binding]; other site 269482000025 salt bridge; other site 269482000026 Predicted transcriptional regulator [Transcription]; Region: COG2932 269482000027 sequence-specific DNA binding site [nucleotide binding]; other site 269482000028 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482000029 Catalytic site [active] 269482000030 ERF superfamily; Region: ERF; pfam04404 269482000031 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 269482000032 Putative exonuclease, RdgC; Region: RdgC; cl01122 269482000033 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 269482000034 KorB domain; Region: KorB; pfam08535 269482000035 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000036 ParA-like protein; Provisional; Region: PHA02518 269482000037 P-loop; other site 269482000038 Magnesium ion binding site [ion binding]; other site 269482000039 Initiator Replication protein; Region: Rep_3; cl03080 269482000040 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482000041 catalytic residue [active] 269482000042 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482000043 Protein of unknown function (DUF497); Region: DUF497; cl01108 269482000044 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 269482000045 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482000046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000047 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 269482000048 MAEBL; Provisional; Region: PTZ00121 269482000049 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 269482000050 tail fiber protein; Region: PHA00430 269482000051 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 269482000052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482000053 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482000054 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482000055 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 269482000056 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482000057 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482000058 dimer interface [polypeptide binding]; other site 269482000059 active site 269482000060 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482000061 folate binding site [chemical binding]; other site 269482000062 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482000063 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482000064 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 269482000065 active site 269482000066 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482000067 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482000068 conserved cys residue [active] 269482000069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482000070 Helix-turn-helix domains; Region: HTH; cl00088 269482000071 HTH-like domain; Region: HTH_21; pfam13276 269482000072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482000073 Integrase core domain; Region: rve; cl01316 269482000074 Integrase core domain; Region: rve_3; cl15866 269482000075 IS2 transposase TnpB; Reviewed; Region: PRK09409 269482000076 HTH-like domain; Region: HTH_21; pfam13276 269482000077 Integrase core domain; Region: rve; cl01316 269482000078 Integrase core domain; Region: rve_3; cl15866 269482000079 Helix-turn-helix domains; Region: HTH; cl00088 269482000080 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000081 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482000082 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000083 AAA domain; Region: AAA_22; pfam13401 269482000084 Phage integrase protein; Region: DUF3701; pfam12482 269482000085 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482000086 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000087 active site 269482000088 DNA binding site [nucleotide binding] 269482000089 Int/Topo IB signature motif; other site 269482000090 ParA-like protein; Provisional; Region: PHA02518 269482000091 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000092 P-loop; other site 269482000093 Magnesium ion binding site [ion binding]; other site 269482000094 ParB-like nuclease domain; Region: ParBc; cl02129 269482000095 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 269482000096 Initiator Replication protein; Region: Rep_3; cl03080 269482000097 ParB-like partition proteins; Region: parB_part; TIGR00180 269482000098 VirB8 protein; Region: VirB8; cl01500 269482000099 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 269482000100 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482000101 VirB7 interaction site; other site 269482000102 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269482000103 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482000104 VirB7 interaction site; other site 269482000105 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482000106 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000107 catalytic residue [active] 269482000108 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 269482000109 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 269482000110 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 269482000111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000112 Walker A motif; other site 269482000113 ATP binding site [chemical binding]; other site 269482000114 Walker B motif; other site 269482000115 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269482000116 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482000117 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482000118 Restriction endonuclease; Region: Mrr_cat; cl00516 269482000119 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482000120 dimer interface [polypeptide binding]; other site 269482000121 ssDNA binding site [nucleotide binding]; other site 269482000122 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482000123 CHC2 zinc finger; Region: zf-CHC2; cl15369 269482000124 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482000125 PRTRC system protein D; Region: PRTRC_D; TIGR03739 269482000126 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 269482000127 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482000128 active site 269482000129 catalytic residues [active] 269482000130 DNA binding site [nucleotide binding] 269482000131 Int/Topo IB signature motif; other site 269482000132 Helix-turn-helix domains; Region: HTH; cl00088 269482000133 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 269482000134 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 269482000135 ParB-like nuclease domain; Region: ParBc; cl02129 269482000136 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 269482000137 PRTRC system protein E; Region: PRTRC_E; TIGR03741 269482000138 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 269482000139 PRTRC system protein F; Region: PRTRC_F; TIGR03742 269482000140 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 269482000141 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 269482000142 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 269482000143 PRTRC system protein A; Region: PRTRC_A; TIGR03735 269482000144 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 269482000145 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 269482000146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482000147 ATP binding site [chemical binding]; other site 269482000148 substrate interface [chemical binding]; other site 269482000149 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482000150 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482000151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000152 Walker A motif; other site 269482000153 ATP binding site [chemical binding]; other site 269482000154 Walker B motif; other site 269482000155 arginine finger; other site 269482000156 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 269482000157 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482000158 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482000159 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482000160 Walker A motif; other site 269482000161 hexamer interface [polypeptide binding]; other site 269482000162 ATP binding site [chemical binding]; other site 269482000163 Walker B motif; other site 269482000164 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 269482000165 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 269482000166 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 269482000167 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 269482000168 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 269482000169 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 269482000170 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 269482000171 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 269482000172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000173 Walker B motif; other site 269482000174 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 269482000175 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269482000176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000177 Family description; Region: UvrD_C_2; cl15862 269482000178 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 269482000179 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 269482000180 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 269482000181 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482000182 active site 269482000183 metal binding site [ion binding]; metal-binding site 269482000184 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 269482000185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000186 Walker A/P-loop; other site 269482000187 ATP binding site [chemical binding]; other site 269482000188 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482000189 PLD-like domain; Region: PLDc_2; pfam13091 269482000190 putative active site [active] 269482000191 catalytic site [active] 269482000192 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482000193 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000194 Helix-turn-helix domains; Region: HTH; cl00088 269482000195 Integrase core domain; Region: rve; cl01316 269482000196 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000197 active site 269482000198 Int/Topo IB signature motif; other site 269482000199 DNA binding site [nucleotide binding] 269482000200 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482000201 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482000202 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482000203 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 269482000204 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482000205 generic binding surface II; other site 269482000206 generic binding surface I; other site 269482000207 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482000208 DNA binding site [nucleotide binding] 269482000209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482000210 DNA-binding site [nucleotide binding]; DNA binding site 269482000211 H-NS histone family; Region: Histone_HNS; pfam00816 269482000212 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482000213 PemK-like protein; Region: PemK; cl00995 269482000214 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482000215 Helix-turn-helix domains; Region: HTH; cl00088 269482000216 HTH-like domain; Region: HTH_21; pfam13276 269482000217 Integrase core domain; Region: rve; cl01316 269482000218 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000219 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000220 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000221 transposase/IS protein; Provisional; Region: PRK09183 269482000222 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000223 Walker A motif; other site 269482000224 ATP binding site [chemical binding]; other site 269482000225 Walker B motif; other site 269482000226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000227 Integrase core domain; Region: rve; cl01316 269482000228 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000229 Integrase core domain; Region: rve; cl01316 269482000230 Integrase core domain; Region: rve_3; cl15866 269482000231 Response regulator receiver domain; Region: Response_reg; pfam00072 269482000232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000233 active site 269482000234 phosphorylation site [posttranslational modification] 269482000235 intermolecular recognition site; other site 269482000236 dimerization interface [polypeptide binding]; other site 269482000237 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482000238 DNA binding residues [nucleotide binding] 269482000239 dimerization interface [polypeptide binding]; other site 269482000240 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482000241 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482000242 dimer interface [polypeptide binding]; other site 269482000243 phosphorylation site [posttranslational modification] 269482000244 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482000245 ATP binding site [chemical binding]; other site 269482000246 Mg2+ binding site [ion binding]; other site 269482000247 G-X-G motif; other site 269482000248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000249 active site 269482000250 phosphorylation site [posttranslational modification] 269482000251 intermolecular recognition site; other site 269482000252 dimerization interface [polypeptide binding]; other site 269482000253 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 269482000254 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482000255 putative ligand binding site [chemical binding]; other site 269482000256 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482000257 TM-ABC transporter signature motif; other site 269482000258 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482000259 TM-ABC transporter signature motif; other site 269482000260 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482000261 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482000262 Walker A/P-loop; other site 269482000263 ATP binding site [chemical binding]; other site 269482000264 Q-loop/lid; other site 269482000265 ABC transporter signature motif; other site 269482000266 Walker B; other site 269482000267 D-loop; other site 269482000268 H-loop/switch region; other site 269482000269 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 269482000270 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482000271 Walker A/P-loop; other site 269482000272 ATP binding site [chemical binding]; other site 269482000273 Q-loop/lid; other site 269482000274 ABC transporter signature motif; other site 269482000275 Walker B; other site 269482000276 D-loop; other site 269482000277 H-loop/switch region; other site 269482000278 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 269482000279 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 269482000280 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 269482000281 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 269482000282 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482000283 multimer interface [polypeptide binding]; other site 269482000284 active site 269482000285 catalytic triad [active] 269482000286 dimer interface [polypeptide binding]; other site 269482000287 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000288 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000289 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482000290 catalytic site [active] 269482000291 Outer membrane efflux protein; Region: OEP; pfam02321 269482000292 Outer membrane efflux protein; Region: OEP; pfam02321 269482000293 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 269482000294 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482000295 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 269482000296 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 269482000297 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 269482000298 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 269482000299 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 269482000300 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482000301 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 269482000302 DsbD alpha interface [polypeptide binding]; other site 269482000303 catalytic residues [active] 269482000304 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 269482000305 Nitrogen regulatory protein P-II; Region: P-II; cl00412 269482000306 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482000307 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482000308 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482000309 DNA binding residues [nucleotide binding] 269482000310 dimer interface [polypeptide binding]; other site 269482000311 copper binding site [ion binding]; other site 269482000312 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000313 DNA binding residues [nucleotide binding] 269482000314 Integrase core domain; Region: rve; cl01316 269482000315 Integrase core domain; Region: rve_3; cl15866 269482000316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000317 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482000318 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482000319 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000320 Walker A motif; other site 269482000321 ATP binding site [chemical binding]; other site 269482000322 Walker B motif; other site 269482000323 arginine finger; other site 269482000324 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482000325 metal-binding site [ion binding] 269482000326 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 269482000327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000328 Helix-turn-helix domains; Region: HTH; cl00088 269482000329 Integrase core domain; Region: rve; cl01316 269482000330 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000332 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000333 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482000334 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482000335 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482000336 motif II; other site 269482000337 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000338 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000339 catalytic residues [active] 269482000340 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000341 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000342 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000343 DNA binding site [nucleotide binding] 269482000344 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000345 DNA-binding interface [nucleotide binding]; DNA binding site 269482000346 putative transposase OrfB; Reviewed; Region: PHA02517 269482000347 Integrase core domain; Region: rve; cl01316 269482000348 Integrase core domain; Region: rve_3; cl15866 269482000349 Helix-turn-helix domains; Region: HTH; cl00088 269482000350 Integrase core domain; Region: rve; cl01316 269482000351 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482000352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000353 Phage integrase protein; Region: DUF3701; pfam12482 269482000354 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482000355 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000356 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000357 Int/Topo IB signature motif; other site 269482000358 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000359 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000360 Phage integrase protein; Region: DUF3701; pfam12482 269482000361 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482000362 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000363 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000364 Int/Topo IB signature motif; other site 269482000365 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000366 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000367 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 269482000368 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 269482000369 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482000370 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000371 active site 269482000372 DNA binding site [nucleotide binding] 269482000373 Int/Topo IB signature motif; other site 269482000374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482000375 Helix-turn-helix domains; Region: HTH; cl00088 269482000376 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482000377 putative dimerization interface [polypeptide binding]; other site 269482000378 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000379 Helix-turn-helix domains; Region: HTH; cl00088 269482000380 Integrase core domain; Region: rve; cl01316 269482000381 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482000382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482000383 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482000384 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482000385 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 269482000386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000387 Walker A/P-loop; other site 269482000388 ATP binding site [chemical binding]; other site 269482000389 Q-loop/lid; other site 269482000390 ABC transporter signature motif; other site 269482000391 Walker B; other site 269482000392 D-loop; other site 269482000393 H-loop/switch region; other site 269482000394 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 269482000395 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482000396 substrate binding pocket [chemical binding]; other site 269482000397 membrane-bound complex binding site; other site 269482000398 hinge residues; other site 269482000399 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000400 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000401 Helix-turn-helix domains; Region: HTH; cl00088 269482000402 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000403 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000404 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 269482000405 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 269482000406 active site 269482000407 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 269482000408 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000409 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000410 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000411 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000412 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 269482000413 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000414 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000415 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000416 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482000417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000418 active site 269482000419 phosphorylation site [posttranslational modification] 269482000420 intermolecular recognition site; other site 269482000421 dimerization interface [polypeptide binding]; other site 269482000422 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482000423 DNA binding site [nucleotide binding] 269482000424 sensor protein QseC; Provisional; Region: PRK10337 269482000425 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482000426 dimer interface [polypeptide binding]; other site 269482000427 phosphorylation site [posttranslational modification] 269482000428 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482000429 ATP binding site [chemical binding]; other site 269482000430 Mg2+ binding site [ion binding]; other site 269482000431 G-X-G motif; other site 269482000432 EamA-like transporter family; Region: EamA; cl01037 269482000433 putative transposase OrfB; Reviewed; Region: PHA02517 269482000434 Integrase core domain; Region: rve; cl01316 269482000435 Integrase core domain; Region: rve_3; cl15866 269482000436 Helix-turn-helix domains; Region: HTH; cl00088 269482000437 EamA-like transporter family; Region: EamA; cl01037 269482000438 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482000439 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000440 catalytic residues [active] 269482000441 catalytic nucleophile [active] 269482000442 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000443 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000444 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000445 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000446 DNA binding site [nucleotide binding] 269482000447 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000448 DNA-binding interface [nucleotide binding]; DNA binding site 269482000449 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000450 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000451 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000453 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000454 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000455 DNA binding site [nucleotide binding] 269482000456 DNA-binding interface [nucleotide binding]; DNA binding site 269482000457 Integrase core domain; Region: rve; cl01316 269482000458 TniQ; Region: TniQ; pfam06527 269482000459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000460 Integrase core domain; Region: rve; cl01316 269482000461 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482000462 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 269482000463 Protein of unknown function DUF86; Region: DUF86; cl01031 269482000464 Cupin domain; Region: Cupin_2; cl09118 269482000465 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482000466 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000467 catalytic residues [active] 269482000468 catalytic nucleophile [active] 269482000469 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000470 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000471 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000472 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000473 DNA binding site [nucleotide binding] 269482000474 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000475 DNA-binding interface [nucleotide binding]; DNA binding site 269482000476 RES domain; Region: RES; cl02411 269482000477 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 269482000478 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482000479 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000480 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000481 active site 269482000482 DNA binding site [nucleotide binding] 269482000483 Int/Topo IB signature motif; other site 269482000484 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000485 S-adenosylmethionine binding site [chemical binding]; other site 269482000486 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482000487 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482000488 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482000489 DNA binding residues [nucleotide binding] 269482000490 dimer interface [polypeptide binding]; other site 269482000491 copper binding site [ion binding]; other site 269482000492 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 269482000493 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482000494 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482000495 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482000496 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 269482000497 S-adenosylmethionine synthetase (AdoMet synthetase); Region: AdoMet_Synthase; pfam01941 269482000498 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482000499 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482000500 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 269482000501 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 269482000502 Creatinine amidohydrolase; Region: Creatininase; cl00618 269482000503 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 269482000504 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482000505 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482000506 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482000507 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 269482000508 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482000509 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 269482000510 active site 269482000511 ATP binding site [chemical binding]; other site 269482000512 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 269482000513 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482000514 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482000515 FtsH Extracellular; Region: FtsH_ext; pfam06480 269482000516 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269482000517 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000518 Walker A motif; other site 269482000519 ATP binding site [chemical binding]; other site 269482000520 Walker B motif; other site 269482000521 arginine finger; other site 269482000522 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482000523 Phospholipid methyltransferase; Region: PEMT; cl00763 269482000524 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 269482000525 Repair protein; Region: Repair_PSII; cl01535 269482000526 Repair protein; Region: Repair_PSII; cl01535 269482000527 LemA family; Region: LemA; cl00742 269482000528 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 269482000529 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 269482000530 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 269482000531 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000532 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000533 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000534 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000535 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000536 Integrase core domain; Region: rve; cl01316 269482000537 Helix-turn-helix domains; Region: HTH; cl00088 269482000538 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482000539 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482000540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482000541 dimer interface [polypeptide binding]; other site 269482000542 conserved gate region; other site 269482000543 putative PBP binding loops; other site 269482000544 ABC-ATPase subunit interface; other site 269482000545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000546 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482000547 Walker A/P-loop; other site 269482000548 ATP binding site [chemical binding]; other site 269482000549 Q-loop/lid; other site 269482000550 ABC transporter signature motif; other site 269482000551 Walker B; other site 269482000552 D-loop; other site 269482000553 H-loop/switch region; other site 269482000554 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 269482000555 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482000556 active site 269482000557 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 269482000558 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 269482000559 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482000560 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 269482000561 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482000562 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 269482000563 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482000564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000567 H-NS histone family; Region: Histone_HNS; pfam00816 269482000568 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482000569 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 269482000570 AAA-like domain; Region: AAA_10; pfam12846 269482000571 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000572 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482000573 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000574 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000575 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482000576 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 269482000577 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000578 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000579 Phage integrase protein; Region: DUF3701; pfam12482 269482000580 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482000581 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000582 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000583 Int/Topo IB signature motif; other site 269482000584 WGR domain; Region: WGR; cl01581 269482000585 Replication initiator protein A; Region: RPA; cl02339 269482000586 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000588 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000589 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 269482000590 Magnesium ion binding site [ion binding]; other site 269482000591 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000592 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 269482000593 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 269482000594 dimerization interface [polypeptide binding]; other site 269482000595 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 269482000596 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 269482000597 dimerization interface [polypeptide binding]; other site 269482000598 putative path to active site cavity [active] 269482000599 diiron center [ion binding]; other site 269482000600 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 269482000601 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 269482000602 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482000603 catalytic loop [active] 269482000604 iron binding site [ion binding]; other site 269482000605 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 269482000606 FAD binding pocket [chemical binding]; other site 269482000607 FAD binding motif [chemical binding]; other site 269482000608 phosphate binding motif [ion binding]; other site 269482000609 beta-alpha-beta structure motif; other site 269482000610 NAD binding pocket [chemical binding]; other site 269482000611 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482000612 catalytic loop [active] 269482000613 iron binding site [ion binding]; other site 269482000614 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 269482000615 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 269482000616 tetramer interface [polypeptide binding]; other site 269482000617 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 269482000618 tetramer interface [polypeptide binding]; other site 269482000619 active site 269482000620 Fe binding site [ion binding]; other site 269482000621 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482000622 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482000623 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 269482000624 NAD binding site [chemical binding]; other site 269482000625 catalytic residues [active] 269482000626 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482000627 acetaldehyde dehydrogenase; Validated; Region: PRK08300 269482000628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482000629 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 269482000630 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 269482000631 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 269482000632 active site 269482000633 catalytic residues [active] 269482000634 metal binding site [ion binding]; metal-binding site 269482000635 DmpG-like communication domain; Region: DmpG_comm; pfam07836 269482000636 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482000637 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 269482000638 active site 1 [active] 269482000639 dimer interface [polypeptide binding]; other site 269482000640 hexamer interface [polypeptide binding]; other site 269482000641 active site 2 [active] 269482000642 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482000643 dinuclear metal binding motif [ion binding]; other site 269482000644 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000645 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482000646 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482000647 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 269482000648 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482000649 Activator of aromatic catabolism; Region: XylR_N; pfam06505 269482000650 Heme NO binding; Region: HNOB; cl15268 269482000651 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 269482000652 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000653 Walker A motif; other site 269482000654 ATP binding site [chemical binding]; other site 269482000655 Walker B motif; other site 269482000656 arginine finger; other site 269482000657 Helix-turn-helix domains; Region: HTH; cl00088 269482000658 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000659 DNA-binding interface [nucleotide binding]; DNA binding site 269482000660 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482000661 MULE transposase domain; Region: MULE; pfam10551 269482000662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000663 DNA binding residues [nucleotide binding] 269482000664 Integrase core domain; Region: rve; cl01316 269482000665 Integrase core domain; Region: rve_3; cl15866 269482000666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000667 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482000668 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482000669 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000670 Walker A motif; other site 269482000671 ATP binding site [chemical binding]; other site 269482000672 Walker B motif; other site 269482000673 arginine finger; other site 269482000674 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000675 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000676 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000677 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000678 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000679 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 269482000680 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482000681 H-NS histone family; Region: Histone_HNS; pfam00816 269482000682 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 269482000683 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 269482000684 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 269482000685 plasmid transfer ATPase TraJ; Region: plasmid_TraJ; TIGR02525 269482000686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000687 Walker A motif; other site 269482000688 ATP binding site [chemical binding]; other site 269482000689 Walker B motif; other site 269482000690 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482000691 PLD-like domain; Region: PLDc_2; pfam13091 269482000692 putative active site [active] 269482000693 catalytic site [active] 269482000694 AAA-like domain; Region: AAA_10; pfam12846 269482000695 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 269482000696 DNA primase, catalytic core; Region: dnaG; TIGR01391 269482000697 CHC2 zinc finger; Region: zf-CHC2; cl15369 269482000698 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482000699 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482000700 active site 269482000701 metal binding site [ion binding]; metal-binding site 269482000702 interdomain interaction site; other site 269482000703 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 269482000704 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482000705 dimer interface [polypeptide binding]; other site 269482000706 catalytic residues [active] 269482000707 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482000708 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000709 catalytic residue [active] 269482000710 DNA topoisomerase III; Validated; Region: PRK08173 269482000711 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482000712 active site 269482000713 putative interdomain interaction site [polypeptide binding]; other site 269482000714 putative metal-binding site [ion binding]; other site 269482000715 putative nucleotide binding site [chemical binding]; other site 269482000716 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 269482000717 domain I; other site 269482000718 phosphate binding site [ion binding]; other site 269482000719 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482000720 domain II; other site 269482000721 domain III; other site 269482000722 nucleotide binding site [chemical binding]; other site 269482000723 DNA binding groove [nucleotide binding] 269482000724 catalytic site [active] 269482000725 domain IV; other site 269482000726 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000727 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 269482000729 Uncharacterized protein family (UPF0257); Region: UPF0257; cl14672 269482000730 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 269482000731 Zeta toxin; Region: Zeta_toxin; pfam06414 269482000732 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482000733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482000734 active site 269482000735 phosphorylation site [posttranslational modification] 269482000736 intermolecular recognition site; other site 269482000737 dimerization interface [polypeptide binding]; other site 269482000738 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482000739 DNA binding residues [nucleotide binding] 269482000740 dimerization interface [polypeptide binding]; other site 269482000741 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482000742 dimer interface [polypeptide binding]; other site 269482000743 ssDNA binding site [nucleotide binding]; other site 269482000744 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482000745 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482000746 ATP binding site [chemical binding]; other site 269482000747 putative Mg++ binding site [ion binding]; other site 269482000748 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482000749 nucleotide binding region [chemical binding]; other site 269482000750 ATP-binding site [chemical binding]; other site 269482000751 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 269482000752 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482000753 DNA primase, catalytic core; Region: dnaG; TIGR01391 269482000754 CHC2 zinc finger; Region: zf-CHC2; cl15369 269482000755 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482000756 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482000757 active site 269482000758 metal binding site [ion binding]; metal-binding site 269482000759 interdomain interaction site; other site 269482000760 DNA topoisomerase III; Validated; Region: PRK08173 269482000761 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482000762 active site 269482000763 putative interdomain interaction site [polypeptide binding]; other site 269482000764 putative metal-binding site [ion binding]; other site 269482000765 putative nucleotide binding site [chemical binding]; other site 269482000766 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482000767 domain I; other site 269482000768 DNA binding groove [nucleotide binding] 269482000769 phosphate binding site [ion binding]; other site 269482000770 domain II; other site 269482000771 domain III; other site 269482000772 nucleotide binding site [chemical binding]; other site 269482000773 catalytic site [active] 269482000774 domain IV; other site 269482000775 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000776 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000777 replicative DNA helicase; Region: DnaB; TIGR00665 269482000778 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482000779 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482000780 Walker A motif; other site 269482000781 ATP binding site [chemical binding]; other site 269482000782 Walker B motif; other site 269482000783 DNA binding loops [nucleotide binding] 269482000784 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482000785 lipid-transfer protein; Provisional; Region: PRK07937 269482000786 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 269482000787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482000788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000789 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000790 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000791 non-specific DNA binding site [nucleotide binding]; other site 269482000792 salt bridge; other site 269482000793 sequence-specific DNA binding site [nucleotide binding]; other site 269482000794 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 269482000795 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 269482000796 aspartate carbamoyltransferase; Provisional; Region: PRK11891 269482000797 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 269482000798 active site 269482000799 interdomain interaction site; other site 269482000800 putative metal-binding site [ion binding]; other site 269482000801 nucleotide binding site [chemical binding]; other site 269482000802 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 269482000803 domain I; other site 269482000804 DNA binding groove [nucleotide binding] 269482000805 phosphate binding site [ion binding]; other site 269482000806 domain II; other site 269482000807 domain III; other site 269482000808 nucleotide binding site [chemical binding]; other site 269482000809 catalytic site [active] 269482000810 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 269482000811 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482000812 dimerization domain [polypeptide binding]; other site 269482000813 dimer interface [polypeptide binding]; other site 269482000814 catalytic residues [active] 269482000815 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482000816 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 269482000817 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000818 Helix-turn-helix domains; Region: HTH; cl00088 269482000819 Integrase core domain; Region: rve; cl01316 269482000820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000821 AAA-like domain; Region: AAA_10; pfam12846 269482000822 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 269482000823 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 269482000824 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269482000825 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482000826 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 269482000827 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 269482000828 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000829 P-loop; other site 269482000830 Magnesium ion binding site [ion binding]; other site 269482000831 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000832 Magnesium ion binding site [ion binding]; other site 269482000833 ParB-like partition proteins; Region: parB_part; TIGR00180 269482000834 ParB-like nuclease domain; Region: ParBc; cl02129 269482000835 Helix-turn-helix domains; Region: HTH; cl00088 269482000836 Peptidase M15; Region: Peptidase_M15_3; cl01194 269482000837 TrfA protein; Region: TrfA; pfam07042 269482000838 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482000839 active site 269482000840 catalytic residues [active] 269482000841 DNA binding site [nucleotide binding] 269482000842 Int/Topo IB signature motif; other site 269482000843 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 269482000844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000845 Walker A motif; other site 269482000846 ATP binding site [chemical binding]; other site 269482000847 Walker B motif; other site 269482000848 StbA protein; Region: StbA; pfam06406 269482000849 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 269482000850 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 269482000851 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482000852 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 269482000853 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 269482000854 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482000855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000856 Walker A motif; other site 269482000857 ATP binding site [chemical binding]; other site 269482000858 Walker B motif; other site 269482000859 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269482000860 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482000861 PilS N terminal; Region: PilS; pfam08805 269482000862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000863 Walker A motif; other site 269482000864 ATP binding site [chemical binding]; other site 269482000865 Walker B motif; other site 269482000866 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 269482000867 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 269482000868 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000869 non-specific DNA binding site [nucleotide binding]; other site 269482000870 salt bridge; other site 269482000871 sequence-specific DNA binding site [nucleotide binding]; other site 269482000872 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000873 sequence-specific DNA binding site [nucleotide binding]; other site 269482000874 salt bridge; other site 269482000875 cell division control protein 6; Reviewed; Region: cdc6; PRK00411 269482000876 PilM; Region: PilM; pfam07419 269482000877 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482000878 Domain of unknown function DUF87; Region: DUF87; pfam01935 269482000879 AAA-like domain; Region: AAA_10; pfam12846 269482000880 AAA-like domain; Region: AAA_10; pfam12846 269482000881 OpgC protein; Region: OpgC_C; cl00792 269482000882 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 269482000883 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482000884 HipA N-terminal domain; Region: Couple_hipA; cl11853 269482000885 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482000886 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482000887 H-NS histone family; Region: Histone_HNS; pfam00816 269482000888 H-NS histone family; Region: Histone_HNS; pfam00816 269482000889 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482000890 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000891 S-adenosylmethionine binding site [chemical binding]; other site 269482000892 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 269482000893 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 269482000894 active site 269482000895 substrate binding site [chemical binding]; other site 269482000896 Mg2+ binding site [ion binding]; other site 269482000897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482000898 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482000899 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 269482000900 PemK-like protein; Region: PemK; cl00995 269482000901 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482000902 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000903 Helix-turn-helix domains; Region: HTH; cl00088 269482000904 Integrase core domain; Region: rve; cl01316 269482000905 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 269482000906 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000907 active site 269482000908 DNA binding site [nucleotide binding] 269482000909 Int/Topo IB signature motif; other site 269482000910 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482000911 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482000912 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482000913 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000914 active site 269482000915 DNA binding site [nucleotide binding] 269482000916 Int/Topo IB signature motif; other site 269482000917 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000918 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000919 High-affinity nickel-transport protein; Region: NicO; cl00964 269482000920 High-affinity nickel-transport protein; Region: NicO; cl00964 269482000921 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482000922 putative homodimer interface [polypeptide binding]; other site 269482000923 putative homotetramer interface [polypeptide binding]; other site 269482000924 putative metal binding site [ion binding]; other site 269482000925 putative homodimer-homodimer interface [polypeptide binding]; other site 269482000926 putative allosteric switch controlling residues; other site 269482000927 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482000928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000929 ABC transporter signature motif; other site 269482000930 Walker B; other site 269482000931 D-loop; other site 269482000932 H-loop/switch region; other site 269482000933 Phage integrase protein; Region: DUF3701; pfam12482 269482000934 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482000935 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000936 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000937 Int/Topo IB signature motif; other site 269482000938 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000939 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482000940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482000941 dimer interface [polypeptide binding]; other site 269482000942 conserved gate region; other site 269482000943 putative PBP binding loops; other site 269482000944 ABC-ATPase subunit interface; other site 269482000945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482000946 Walker A/P-loop; other site 269482000947 ATP binding site [chemical binding]; other site 269482000948 Q-loop/lid; other site 269482000949 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482000950 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482000951 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482000952 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482000953 active site 269482000954 metal binding site [ion binding]; metal-binding site 269482000955 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482000956 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482000957 active site residue [active] 269482000958 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482000959 Chromate transporter; Region: Chromate_transp; pfam02417 269482000960 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482000961 Chromate transporter; Region: Chromate_transp; pfam02417 269482000962 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482000963 Chromate transporter; Region: Chromate_transp; pfam02417 269482000964 Chromate transporter; Region: Chromate_transp; pfam02417 269482000965 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482000966 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482000967 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482000968 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482000969 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482000970 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482000971 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 269482000972 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482000973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482000974 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482000975 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482000976 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482000977 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482000978 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482000979 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482000980 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 269482000981 Zn binding site [ion binding]; other site 269482000982 Flagellin N-methylase; Region: FliB; cl00497 269482000983 aspartate carbamoyltransferase; Provisional; Region: PRK11891 269482000984 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 269482000985 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482000986 cell division protein; Validated; Region: ftsH; CHL00176 269482000987 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482000988 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000989 Walker A motif; other site 269482000990 ATP binding site [chemical binding]; other site 269482000991 Walker B motif; other site 269482000992 arginine finger; other site 269482000993 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482000994 ATP binding site [chemical binding]; other site 269482000995 putative Mg++ binding site [ion binding]; other site 269482000996 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482000997 nucleotide binding region [chemical binding]; other site 269482000998 ATP-binding site [chemical binding]; other site 269482000999 replication factor A; Reviewed; Region: PRK07217 269482001000 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 269482001001 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001002 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001003 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001004 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001005 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001006 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001007 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 269482001008 TraU protein; Region: TraU; cl06067 269482001009 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 269482001010 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482001011 dimer interface [polypeptide binding]; other site 269482001012 ssDNA binding site [nucleotide binding]; other site 269482001013 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482001014 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482001015 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482001016 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001017 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001018 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482001019 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482001020 Chromate transporter; Region: Chromate_transp; pfam02417 269482001021 Chromate transporter; Region: Chromate_transp; pfam02417 269482001022 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482001023 Chromate transporter; Region: Chromate_transp; pfam02417 269482001024 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482001025 Chromate transporter; Region: Chromate_transp; pfam02417 269482001026 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482001027 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482001028 active site residue [active] 269482001029 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482001030 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482001031 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482001032 active site 269482001033 metal binding site [ion binding]; metal-binding site 269482001034 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482001035 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482001036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001037 dimer interface [polypeptide binding]; other site 269482001038 conserved gate region; other site 269482001039 putative PBP binding loops; other site 269482001040 ABC-ATPase subunit interface; other site 269482001041 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482001042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482001043 Walker A/P-loop; other site 269482001044 ATP binding site [chemical binding]; other site 269482001045 Q-loop/lid; other site 269482001046 ABC transporter signature motif; other site 269482001047 Walker B; other site 269482001048 D-loop; other site 269482001049 H-loop/switch region; other site 269482001050 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482001051 putative homodimer interface [polypeptide binding]; other site 269482001052 putative homotetramer interface [polypeptide binding]; other site 269482001053 putative metal binding site [ion binding]; other site 269482001054 putative homodimer-homodimer interface [polypeptide binding]; other site 269482001055 putative allosteric switch controlling residues; other site 269482001056 High-affinity nickel-transport protein; Region: NicO; cl00964 269482001057 High-affinity nickel-transport protein; Region: NicO; cl00964 269482001058 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482001059 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482001060 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482001061 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482001062 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001063 active site 269482001064 DNA binding site [nucleotide binding] 269482001065 Int/Topo IB signature motif; other site 269482001066 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482001067 Putative exonuclease, RdgC; Region: RdgC; cl01122 269482001068 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001069 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001070 Integrase core domain; Region: rve; cl01316 269482001071 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001072 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001073 Helix-turn-helix domains; Region: HTH; cl00088 269482001074 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482001075 trimer interface [polypeptide binding]; other site 269482001076 eyelet of channel; other site 269482001077 Spore germination protein; Region: Spore_permease; cl15802 269482001078 aminotransferase; Provisional; Region: PRK06105 269482001079 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482001080 inhibitor-cofactor binding pocket; inhibition site 269482001081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001082 catalytic residue [active] 269482001083 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001084 Helix-turn-helix domains; Region: HTH; cl00088 269482001085 Integrase core domain; Region: rve; cl01316 269482001086 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 269482001087 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482001088 substrate binding pocket [chemical binding]; other site 269482001089 membrane-bound complex binding site; other site 269482001090 hinge residues; other site 269482001091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001092 dimer interface [polypeptide binding]; other site 269482001093 conserved gate region; other site 269482001094 putative PBP binding loops; other site 269482001095 ABC-ATPase subunit interface; other site 269482001096 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482001097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001098 dimer interface [polypeptide binding]; other site 269482001099 conserved gate region; other site 269482001100 putative PBP binding loops; other site 269482001101 ABC-ATPase subunit interface; other site 269482001102 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 269482001103 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482001104 Walker A/P-loop; other site 269482001105 ATP binding site [chemical binding]; other site 269482001106 Q-loop/lid; other site 269482001107 ABC transporter signature motif; other site 269482001108 Walker B; other site 269482001109 D-loop; other site 269482001110 H-loop/switch region; other site 269482001111 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482001112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001113 DNA-binding site [nucleotide binding]; DNA binding site 269482001114 Helix-turn-helix domains; Region: HTH; cl00088 269482001115 FCD domain; Region: FCD; cl11656 269482001116 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 269482001117 alanine racemase; Reviewed; Region: PRK13340 269482001118 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482001119 active site 269482001120 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482001121 substrate binding site [chemical binding]; other site 269482001122 catalytic residues [active] 269482001123 dimer interface [polypeptide binding]; other site 269482001124 ornithine cyclodeaminase; Validated; Region: PRK07340 269482001125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001126 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482001127 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 269482001128 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001129 Helix-turn-helix domains; Region: HTH; cl00088 269482001130 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482001131 dimerization interface [polypeptide binding]; other site 269482001132 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 269482001133 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482001134 FAD binding domain; Region: FAD_binding_4; pfam01565 269482001135 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482001136 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482001137 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482001138 non-specific DNA binding site [nucleotide binding]; other site 269482001139 salt bridge; other site 269482001140 sequence-specific DNA binding site [nucleotide binding]; other site 269482001141 Cupin domain; Region: Cupin_2; cl09118 269482001142 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482001143 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482001144 dimerization interface [polypeptide binding]; other site 269482001145 ligand binding site [chemical binding]; other site 269482001146 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482001147 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 269482001148 tetrameric interface [polypeptide binding]; other site 269482001149 NAD binding site [chemical binding]; other site 269482001150 catalytic residues [active] 269482001151 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482001152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001153 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482001154 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001156 homodimer interface [polypeptide binding]; other site 269482001157 catalytic residue [active] 269482001158 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482001159 Ligand binding site [chemical binding]; other site 269482001160 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482001161 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482001162 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 269482001163 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482001164 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 269482001165 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 269482001166 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482001167 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482001168 dimerization interface [polypeptide binding]; other site 269482001169 ligand binding site [chemical binding]; other site 269482001170 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482001171 Helix-turn-helix domains; Region: HTH; cl00088 269482001172 AsnC family; Region: AsnC_trans_reg; pfam01037 269482001173 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482001174 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 269482001175 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482001176 catalytic residue [active] 269482001177 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482001178 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482001179 metal binding site [ion binding]; metal-binding site 269482001180 putative dimer interface [polypeptide binding]; other site 269482001181 allantoate amidohydrolase; Reviewed; Region: PRK12890 269482001182 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482001183 active site 269482001184 metal binding site [ion binding]; metal-binding site 269482001185 dimer interface [polypeptide binding]; other site 269482001186 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001187 Helix-turn-helix domains; Region: HTH; cl00088 269482001188 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482001189 dimerization interface [polypeptide binding]; other site 269482001190 substrate binding pocket [chemical binding]; other site 269482001191 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 269482001192 classical (c) SDRs; Region: SDR_c; cd05233 269482001193 NAD(P) binding site [chemical binding]; other site 269482001194 active site 269482001195 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482001196 Transcriptional activator [Transcription]; Region: ChrR; COG3806 269482001197 Cupin domain; Region: Cupin_2; cl09118 269482001198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001199 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 269482001200 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001201 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482001202 putative substrate translocation pore; other site 269482001203 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 269482001204 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001206 homodimer interface [polypeptide binding]; other site 269482001207 catalytic residue [active] 269482001208 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482001209 Cupin domain; Region: Cupin_2; cl09118 269482001210 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482001211 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 269482001212 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 269482001213 Helix-turn-helix domains; Region: HTH; cl00088 269482001214 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482001215 dimerization interface [polypeptide binding]; other site 269482001216 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482001217 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 269482001218 putative NAD(P) binding site [chemical binding]; other site 269482001219 putative substrate binding site [chemical binding]; other site 269482001220 catalytic Zn binding site [ion binding]; other site 269482001221 structural Zn binding site [ion binding]; other site 269482001222 Restriction endonuclease; Region: Mrr_cat; cl00516 269482001223 RES domain; Region: RES; cl02411 269482001224 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482001225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482001226 DNA topoisomerase III; Provisional; Region: PRK07726 269482001227 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482001228 active site 269482001229 putative interdomain interaction site [polypeptide binding]; other site 269482001230 putative metal-binding site [ion binding]; other site 269482001231 putative nucleotide binding site [chemical binding]; other site 269482001232 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 269482001233 domain I; other site 269482001234 phosphate binding site [ion binding]; other site 269482001235 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482001236 domain II; other site 269482001237 domain III; other site 269482001238 nucleotide binding site [chemical binding]; other site 269482001239 DNA binding groove [nucleotide binding] 269482001240 catalytic site [active] 269482001241 domain IV; other site 269482001242 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482001243 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 269482001244 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 269482001245 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 269482001246 Integrase core domain; Region: rve; cl01316 269482001247 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482001248 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482001249 Walker A motif; other site 269482001250 ATP binding site [chemical binding]; other site 269482001251 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 269482001252 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482001253 Walker A motif; other site 269482001254 ATP binding site [chemical binding]; other site 269482001255 Walker B motif; other site 269482001256 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482001257 metal ion-dependent adhesion site (MIDAS); other site 269482001258 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 269482001259 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 269482001260 ssDNA binding site; other site 269482001261 generic binding surface II; other site 269482001262 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482001263 ATP binding site [chemical binding]; other site 269482001264 putative Mg++ binding site [ion binding]; other site 269482001265 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482001266 nucleotide binding region [chemical binding]; other site 269482001267 ATP-binding site [chemical binding]; other site 269482001268 Type-1V conjugative transfer system mating pair stabilisation; Region: TraN; pfam06986 269482001269 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001270 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001271 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001272 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 269482001273 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 269482001274 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 269482001275 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 269482001276 active site 269482001277 dimer interface [polypeptide binding]; other site 269482001278 effector binding site; other site 269482001279 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 269482001280 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482001281 Sel1 repeat; Region: Sel1; cl02723 269482001282 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482001283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482001284 catalytic residue [active] 269482001285 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482001286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482001287 Walker A motif; other site 269482001288 ATP binding site [chemical binding]; other site 269482001289 Walker B motif; other site 269482001290 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 269482001291 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 269482001292 catalytic residues [active] 269482001293 hinge region; other site 269482001294 alpha helical domain; other site 269482001295 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 269482001296 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 269482001297 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 269482001298 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482001299 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 269482001300 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 269482001301 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 269482001302 Domain of unknown function DUF87; Region: DUF87; pfam01935 269482001303 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 269482001304 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269482001305 TraK protein; Region: TraK; pfam06586 269482001306 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 269482001307 TraE protein; Region: TraE; cl05060 269482001308 TraL protein; Region: TraL; cl06278 269482001309 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482001310 ligand binding site [chemical binding]; other site 269482001311 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 269482001312 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 269482001313 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 269482001314 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 269482001315 Peptidase M15; Region: Peptidase_M15_3; cl01194 269482001316 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 269482001317 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 269482001318 CAP-like domain; other site 269482001319 active site 269482001320 primary dimer interface [polypeptide binding]; other site 269482001321 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482001322 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 269482001323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482001324 ATP binding site [chemical binding]; other site 269482001325 Mg2+ binding site [ion binding]; other site 269482001326 G-X-G motif; other site 269482001327 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482001328 anchoring element; other site 269482001329 dimer interface [polypeptide binding]; other site 269482001330 ATP binding site [chemical binding]; other site 269482001331 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482001332 active site 269482001333 metal binding site [ion binding]; metal-binding site 269482001334 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482001335 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 269482001336 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482001337 active site 269482001338 metal binding site [ion binding]; metal-binding site 269482001339 interdomain interaction site; other site 269482001340 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 269482001341 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482001342 replicative DNA helicase; Region: DnaB; TIGR00665 269482001343 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482001344 Walker A motif; other site 269482001345 ATP binding site [chemical binding]; other site 269482001346 Walker B motif; other site 269482001347 DNA binding loops [nucleotide binding] 269482001348 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001349 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001350 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001351 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001352 Helix-turn-helix domains; Region: HTH; cl00088 269482001353 Integrase core domain; Region: rve; cl01316 269482001354 Helix-turn-helix domains; Region: HTH; cl00088 269482001355 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001356 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001357 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001358 Integrase core domain; Region: rve; cl01316 269482001359 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001360 Glutamine amidotransferase class-I; Region: GATase; pfam00117 269482001361 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 269482001362 catalytic triad [active] 269482001363 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482001364 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 269482001365 NAD(P) binding site [chemical binding]; other site 269482001366 catalytic residues [active] 269482001367 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482001368 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482001369 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482001370 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482001371 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482001372 putative active site [active] 269482001373 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 269482001374 Na binding site [ion binding]; other site 269482001375 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482001376 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269482001377 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482001378 DNA binding residues [nucleotide binding] 269482001379 dimerization interface [polypeptide binding]; other site 269482001380 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001381 Helix-turn-helix domains; Region: HTH; cl00088 269482001382 Integrase core domain; Region: rve; cl01316 269482001383 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482001384 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 269482001385 active site 269482001386 Phage integrase protein; Region: DUF3701; pfam12482 269482001387 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482001388 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482001389 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482001390 Int/Topo IB signature motif; other site 269482001391 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482001392 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482001393 Magnesium ion binding site [ion binding]; other site 269482001394 ParB-like partition proteins; Region: parB_part; TIGR00180 269482001395 ParB-like nuclease domain; Region: ParBc; cl02129 269482001396 KorB domain; Region: KorB; pfam08535 269482001397 PAS fold; Region: PAS; pfam00989 269482001398 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482001399 putative active site [active] 269482001400 heme pocket [chemical binding]; other site 269482001401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001402 metal binding site [ion binding]; metal-binding site 269482001403 I-site; other site 269482001404 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001405 PAS domain S-box; Region: sensory_box; TIGR00229 269482001406 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482001407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001408 metal binding site [ion binding]; metal-binding site 269482001409 active site 269482001410 I-site; other site 269482001411 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001412 HDOD domain; Region: HDOD; pfam08668 269482001413 5'-3' exonuclease; Region: 53EXOc; smart00475 269482001414 PIN domain of bacteriophage T3, T4 RNase H, T5-5'nuclease, and homologs; Region: PIN_T4-like; cd09860 269482001415 active site 269482001416 metal binding site 1 [ion binding]; metal-binding site 269482001417 5' ssDNA interaction site; other site 269482001418 3' ssDNA interaction site; other site 269482001419 metal binding site 2 [ion binding]; metal-binding site 269482001420 H3TH domain of bacteriophage T3, T4 RNase H, T5-5' nucleases, and homologs; Region: H3TH_T4-like; cd09899 269482001421 DNA binding site [nucleotide binding] 269482001422 metal binding site [ion binding]; metal-binding site 269482001423 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 269482001424 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 269482001425 generic binding surface II; other site 269482001426 generic binding surface I; other site 269482001427 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001428 Helix-turn-helix domains; Region: HTH; cl00088 269482001429 Integrase core domain; Region: rve; cl01316 269482001430 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482001431 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001432 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001433 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001434 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482001435 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482001436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482001437 cofactor binding site; other site 269482001438 DNA binding site [nucleotide binding] 269482001439 substrate interaction site [chemical binding]; other site 269482001440 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 269482001441 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001442 Helix-turn-helix domains; Region: HTH; cl00088 269482001443 Integrase core domain; Region: rve; cl01316 269482001444 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 269482001445 Protein of unknown function DUF91; Region: DUF91; cl00709 269482001446 RDD family; Region: RDD; cl00746 269482001447 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 269482001448 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 269482001449 active site 269482001450 substrate binding site [chemical binding]; other site 269482001451 Mg2+ binding site [ion binding]; other site 269482001452 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482001453 PRTRC system protein D; Region: PRTRC_D; TIGR03739 269482001454 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269482001455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482001456 Family description; Region: UvrD_C_2; cl15862 269482001457 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 269482001458 Restriction endonuclease; Region: Mrr_cat; cl00516 269482001459 Peptidase A4 family; Region: Peptidase_A4; pfam01828 269482001460 Cell division inhibitor SulA; Region: SulA; cl01880 269482001461 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 269482001462 active site 269482001463 DNA binding site [nucleotide binding] 269482001464 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 269482001465 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 269482001466 DNA binding site [nucleotide binding] 269482001467 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 269482001468 nucleotide binding site [chemical binding]; other site 269482001469 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482001470 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482001471 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482001472 binding surface 269482001473 TPR motif; other site 269482001474 TPR repeat; Region: TPR_11; pfam13414 269482001475 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 269482001476 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 269482001477 putative DNA binding site [nucleotide binding]; other site 269482001478 putative homodimer interface [polypeptide binding]; other site 269482001479 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 269482001480 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482001481 ATP binding site [chemical binding]; other site 269482001482 putative Mg++ binding site [ion binding]; other site 269482001483 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482001484 nucleotide binding region [chemical binding]; other site 269482001485 ATP-binding site [chemical binding]; other site 269482001486 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 269482001487 Mrr N-terminal domain; Region: Mrr_N; pfam14338 269482001488 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482001489 SET domain; Region: SET; cl02566 269482001490 Domain of unknown function (DUF1817); Region: DUF1817; cl02292 269482001491 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 269482001492 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 269482001493 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 269482001494 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482001495 hypothetical protein; Provisional; Region: PRK09945 269482001496 hypothetical protein; Provisional; Region: PRK09945 269482001497 hypothetical protein; Provisional; Region: PRK09945 269482001498 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482001499 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 269482001500 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482001501 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482001502 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001503 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001504 Integrase core domain; Region: rve; cl01316 269482001505 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001506 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001508 Helix-turn-helix domains; Region: HTH; cl00088 269482001509 Protein of unknown function DUF91; Region: DUF91; cl00709 269482001510 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 269482001511 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482001512 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482001513 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 269482001514 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 269482001515 Integral membrane protein TerC family; Region: TerC; cl10468 269482001516 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 269482001517 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 269482001518 putative metal binding site [ion binding]; other site 269482001519 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 269482001520 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 269482001521 signal peptidase I; Provisional; Region: PRK10861 269482001522 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482001523 Catalytic site [active] 269482001524 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482001525 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482001526 cofactor binding site; other site 269482001527 DNA binding site [nucleotide binding] 269482001528 substrate interaction site [chemical binding]; other site 269482001529 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001530 Helix-turn-helix domains; Region: HTH; cl00088 269482001531 Integrase core domain; Region: rve; cl01316 269482001532 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 269482001533 catalytic motif [active] 269482001534 Catalytic residue [active] 269482001535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482001536 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 269482001537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482001538 active site 269482001539 phosphorylation site [posttranslational modification] 269482001540 intermolecular recognition site; other site 269482001541 dimerization interface [polypeptide binding]; other site 269482001542 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482001543 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482001544 ParB-like nuclease domain; Region: ParBc; cl02129 269482001545 KorB domain; Region: KorB; pfam08535 269482001546 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482001547 active site 269482001548 metal binding site [ion binding]; metal-binding site 269482001549 Flagellin N-methylase; Region: FliB; cl00497 269482001550 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482001551 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 269482001552 active site 269482001553 putative substrate binding region [chemical binding]; other site 269482001554 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 269482001555 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482001556 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 269482001557 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482001558 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001559 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001560 Integrase core domain; Region: rve; cl01316 269482001561 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001562 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001563 Helix-turn-helix domains; Region: HTH; cl00088 269482001564 H-NS histone family; Region: Histone_HNS; pfam00816 269482001565 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482001566 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 269482001567 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 269482001568 putative active site [active] 269482001569 putative NTP binding site [chemical binding]; other site 269482001570 putative nucleic acid binding site [nucleotide binding]; other site 269482001571 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 269482001572 hypothetical protein; Provisional; Region: PRK13794 269482001573 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482001574 Ligand Binding Site [chemical binding]; other site 269482001575 AAA-like domain; Region: AAA_10; pfam12846 269482001576 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 269482001577 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001578 active site 269482001579 Int/Topo IB signature motif; other site 269482001580 DNA binding site [nucleotide binding] 269482001581 SprT homologues; Region: SprT; cl01182 269482001582 SprT homologues; Region: SprT; cl01182 269482001583 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482001584 dimerization domain [polypeptide binding]; other site 269482001585 dimer interface [polypeptide binding]; other site 269482001586 catalytic residues [active] 269482001587 dihydroxyacetone kinase; Provisional; Region: PRK14479 269482001588 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 269482001589 DAK2 domain; Region: Dak2; cl03685 269482001590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001591 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482001592 putative substrate translocation pore; other site 269482001593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 269482001594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482001595 dimer interface [polypeptide binding]; other site 269482001596 putative CheW interface [polypeptide binding]; other site 269482001597 hypothetical protein; Provisional; Region: PRK07482 269482001598 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482001599 inhibitor-cofactor binding pocket; inhibition site 269482001600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001601 catalytic residue [active] 269482001602 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482001603 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482001604 tetramerization interface [polypeptide binding]; other site 269482001605 NAD(P) binding site [chemical binding]; other site 269482001606 catalytic residues [active] 269482001607 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482001608 Helix-turn-helix domains; Region: HTH; cl00088 269482001609 AsnC family; Region: AsnC_trans_reg; pfam01037 269482001610 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 269482001611 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 269482001612 putative active site [active] 269482001613 Zn binding site [ion binding]; other site 269482001614 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 269482001615 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482001616 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 269482001617 active site 269482001618 ectoine utilization protein EutC; Validated; Region: PRK08291 269482001619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001620 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269482001621 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482001622 tetramer interface [polypeptide binding]; other site 269482001623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001624 catalytic residue [active] 269482001625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001626 DNA-binding site [nucleotide binding]; DNA binding site 269482001627 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482001628 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001630 homodimer interface [polypeptide binding]; other site 269482001631 catalytic residue [active] 269482001632 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482001633 Helix-turn-helix domains; Region: HTH; cl00088 269482001634 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482001635 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482001636 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 269482001637 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 269482001638 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482001639 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482001640 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482001641 TOBE domain; Region: TOBE_2; cl01440 269482001642 TOBE domain; Region: TOBE_2; cl01440 269482001643 EamA-like transporter family; Region: EamA; cl01037 269482001644 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 269482001645 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482001646 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482001647 Helix-turn-helix domains; Region: HTH; cl00088 269482001648 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 269482001649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482001650 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482001651 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482001652 P-loop; other site 269482001653 Magnesium ion binding site [ion binding]; other site 269482001654 ParB-like partition proteins; Region: parB_part; TIGR00180 269482001655 ParB-like nuclease domain; Region: ParBc; cl02129 269482001656 Initiator Replication protein; Region: Rep_3; cl03080 269482001657 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001658 Helix-turn-helix domains; Region: HTH; cl00088 269482001659 Integrase core domain; Region: rve; cl01316 269482001660 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001661 Helix-turn-helix domains; Region: HTH; cl00088 269482001662 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482001663 dimerization interface [polypeptide binding]; other site 269482001664 substrate binding pocket [chemical binding]; other site 269482001665 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 269482001666 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 269482001667 GDP-binding site [chemical binding]; other site 269482001668 ACT binding site; other site 269482001669 IMP binding site; other site 269482001670 transcriptional regulator; Provisional; Region: PRK10632 269482001671 Helix-turn-helix domains; Region: HTH; cl00088 269482001672 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482001673 putative effector binding pocket; other site 269482001674 dimerization interface [polypeptide binding]; other site 269482001675 Dienelactone hydrolase family; Region: DLH; pfam01738 269482001676 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482001677 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 269482001678 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482001679 RES domain; Region: RES; cl02411 269482001680 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482001681 active site 269482001682 Int/Topo IB signature motif; other site 269482001683 catalytic residues [active] 269482001684 DNA binding site [nucleotide binding] 269482001685 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 269482001686 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 269482001687 active site 269482001688 metal binding site [ion binding]; metal-binding site 269482001689 DNA binding site [nucleotide binding] 269482001690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482001691 AAA domain; Region: AAA_27; pfam13514 269482001692 AAA domain; Region: AAA_27; pfam13514 269482001693 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482001694 Protein of unknown function (DUF429); Region: DUF429; cl12046 269482001695 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482001696 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482001697 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482001698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482001699 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482001700 AMP-binding enzyme; Region: AMP-binding; cl15778 269482001701 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482001702 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 269482001703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482001704 NAD binding site [chemical binding]; other site 269482001705 homodimer interface [polypeptide binding]; other site 269482001706 homotetramer interface [polypeptide binding]; other site 269482001707 active site 269482001708 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 269482001709 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482001710 dimer interface [polypeptide binding]; other site 269482001711 active site 269482001712 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 269482001713 Helix-turn-helix domains; Region: HTH; cl00088 269482001714 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 269482001715 allantoate amidohydrolase; Reviewed; Region: PRK09290 269482001716 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482001717 active site 269482001718 metal binding site [ion binding]; metal-binding site 269482001719 dimer interface [polypeptide binding]; other site 269482001720 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 269482001721 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 269482001722 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 269482001723 homodimer interface [polypeptide binding]; other site 269482001724 active site 269482001725 FMN binding site [chemical binding]; other site 269482001726 substrate binding site [chemical binding]; other site 269482001727 4Fe-4S binding domain; Region: Fer4; cl02805 269482001728 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 269482001729 Na binding site [ion binding]; other site 269482001730 putative substrate binding site [chemical binding]; other site 269482001731 phenylhydantoinase; Validated; Region: PRK08323 269482001732 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 269482001733 tetramer interface [polypeptide binding]; other site 269482001734 active site 269482001735 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482001736 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482001737 [2Fe-2S] cluster binding site [ion binding]; other site 269482001738 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 269482001739 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482001740 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 269482001741 catalytic residues [active] 269482001742 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 269482001743 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 269482001744 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001745 active site 269482001746 DNA binding site [nucleotide binding] 269482001747 Int/Topo IB signature motif; other site 269482001748 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482001749 IHF dimer interface [polypeptide binding]; other site 269482001750 IHF - DNA interface [nucleotide binding]; other site 269482001751 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001752 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482001753 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001754 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001755 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 269482001756 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 269482001757 Helix-turn-helix domains; Region: HTH; cl00088 269482001758 putative transposase OrfB; Reviewed; Region: PHA02517 269482001759 HTH-like domain; Region: HTH_21; pfam13276 269482001760 Integrase core domain; Region: rve; cl01316 269482001761 Integrase core domain; Region: rve_3; cl15866 269482001762 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001763 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001764 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001765 BON domain; Region: BON; cl02771 269482001766 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482001767 dinuclear metal binding motif [ion binding]; other site 269482001768 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482001769 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482001770 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482001771 DNA-binding interface [nucleotide binding]; DNA binding site 269482001772 Helix-turn-helix domains; Region: HTH; cl00088 269482001773 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001774 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001775 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482001776 Integrase core domain; Region: rve; cl01316 269482001777 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001778 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482001779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482001780 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482001781 Integrase core domain; Region: rve; cl01316 269482001782 Integrase core domain; Region: rve_3; cl15866 269482001783 H-NS histone family; Region: Histone_HNS; pfam00816 269482001784 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482001785 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482001786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482001787 active site 269482001788 phosphorylation site [posttranslational modification] 269482001789 intermolecular recognition site; other site 269482001790 dimerization interface [polypeptide binding]; other site 269482001791 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482001792 DNA binding residues [nucleotide binding] 269482001793 dimerization interface [polypeptide binding]; other site 269482001794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001795 metal binding site [ion binding]; metal-binding site 269482001796 active site 269482001797 I-site; other site 269482001798 Integrase core domain; Region: rve; cl01316 269482001799 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482001800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482001801 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482001802 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 269482001803 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001804 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 269482001805 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482001806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482001807 dimer interface [polypeptide binding]; other site 269482001808 putative CheW interface [polypeptide binding]; other site 269482001809 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 269482001810 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482001811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001812 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 269482001813 HTH-like domain; Region: HTH_21; pfam13276 269482001814 Integrase core domain; Region: rve; cl01316 269482001815 Integrase core domain; Region: rve_3; cl15866 269482001816 Helix-turn-helix domains; Region: HTH; cl00088 269482001817 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482001818 PemK-like protein; Region: PemK; cl00995 269482001819 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 269482001820 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482001821 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482001822 substrate binding pocket [chemical binding]; other site 269482001823 membrane-bound complex binding site; other site 269482001824 hinge residues; other site 269482001825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001826 dimer interface [polypeptide binding]; other site 269482001827 conserved gate region; other site 269482001828 putative PBP binding loops; other site 269482001829 ABC-ATPase subunit interface; other site 269482001830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001831 dimer interface [polypeptide binding]; other site 269482001832 conserved gate region; other site 269482001833 putative PBP binding loops; other site 269482001834 ABC-ATPase subunit interface; other site 269482001835 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482001836 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482001837 Walker A/P-loop; other site 269482001838 ATP binding site [chemical binding]; other site 269482001839 Q-loop/lid; other site 269482001840 ABC transporter signature motif; other site 269482001841 Walker B; other site 269482001842 D-loop; other site 269482001843 H-loop/switch region; other site 269482001844 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482001845 active sites [active] 269482001846 tetramer interface [polypeptide binding]; other site 269482001847 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482001848 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001849 DNA-binding site [nucleotide binding]; DNA binding site 269482001850 UTRA domain; Region: UTRA; cl01230 269482001851 NMT1-like family; Region: NMT1_2; cl15260 269482001852 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 269482001853 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 269482001854 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 269482001855 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 269482001856 urea carboxylase; Region: urea_carbox; TIGR02712 269482001857 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482001858 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482001859 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 269482001860 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 269482001861 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 269482001862 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482001863 carboxyltransferase (CT) interaction site; other site 269482001864 biotinylation site [posttranslational modification]; other site 269482001865 allophanate hydrolase; Provisional; Region: PRK08186 269482001866 Amidase; Region: Amidase; cl11426 269482001867 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482001868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001869 dimer interface [polypeptide binding]; other site 269482001870 conserved gate region; other site 269482001871 putative PBP binding loops; other site 269482001872 ABC-ATPase subunit interface; other site 269482001873 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482001874 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482001875 Walker A/P-loop; other site 269482001876 ATP binding site [chemical binding]; other site 269482001877 Q-loop/lid; other site 269482001878 ABC transporter signature motif; other site 269482001879 Walker B; other site 269482001880 D-loop; other site 269482001881 H-loop/switch region; other site 269482001882 hypothetical protein; Validated; Region: PRK07586 269482001883 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482001884 PYR/PP interface [polypeptide binding]; other site 269482001885 dimer interface [polypeptide binding]; other site 269482001886 TPP binding site [chemical binding]; other site 269482001887 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 269482001888 TPP-binding site [chemical binding]; other site 269482001889 dimer interface [polypeptide binding]; other site 269482001890 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 269482001891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001892 NAD(P) binding site [chemical binding]; other site 269482001893 active site 269482001894 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 269482001895 VPS10 domain; Region: VPS10; smart00602 269482001896 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 269482001897 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482001898 putative active site [active] 269482001899 putative metal binding site [ion binding]; other site 269482001900 Amino acid synthesis; Region: AA_synth; pfam06684 269482001901 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482001902 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482001903 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 269482001904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482001905 NIPSNAP; Region: NIPSNAP; pfam07978 269482001906 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482001907 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482001908 tetramerization interface [polypeptide binding]; other site 269482001909 NAD(P) binding site [chemical binding]; other site 269482001910 catalytic residues [active] 269482001911 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482001912 Helix-turn-helix domains; Region: HTH; cl00088 269482001913 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482001914 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482001915 trimer interface [polypeptide binding]; other site 269482001916 eyelet of channel; other site 269482001917 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482001918 trimer interface [polypeptide binding]; other site 269482001919 eyelet of channel; other site 269482001920 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482001921 hypothetical protein; Provisional; Region: PRK07481 269482001922 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482001923 inhibitor-cofactor binding pocket; inhibition site 269482001924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001925 catalytic residue [active] 269482001926 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 269482001927 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482001928 NAD(P) binding site [chemical binding]; other site 269482001929 catalytic residues [active] 269482001930 Amino acid permease; Region: AA_permease; pfam00324 269482001931 transcriptional regulator EutR; Provisional; Region: PRK10130 269482001932 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482001933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001934 putative substrate translocation pore; other site 269482001935 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001936 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 269482001937 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482001938 Dehydratase family; Region: ILVD_EDD; cl00340 269482001939 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482001940 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482001941 DNA binding site [nucleotide binding] 269482001942 domain linker motif; other site 269482001943 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 269482001944 putative dimerization interface [polypeptide binding]; other site 269482001945 putative ligand binding site [chemical binding]; other site 269482001946 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482001947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001948 putative substrate translocation pore; other site 269482001949 citrate-proton symporter; Provisional; Region: PRK15075 269482001950 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001951 putative substrate translocation pore; other site 269482001952 tricarballylate utilization protein B; Provisional; Region: PRK15033 269482001953 tricarballylate dehydrogenase; Validated; Region: PRK08274 269482001954 Helix-turn-helix domains; Region: HTH; cl00088 269482001955 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 269482001956 putative dimerization interface [polypeptide binding]; other site 269482001957 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482001958 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482001959 Cupin domain; Region: Cupin_2; cl09118 269482001960 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482001961 Bacterial sugar transferase; Region: Bac_transf; cl00939 269482001962 Low molecular weight phosphatase family; Region: LMWPc; cl00105 269482001963 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482001964 active site 269482001965 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482001966 polysaccharide export protein Wza; Provisional; Region: PRK15078 269482001967 SLBB domain; Region: SLBB; pfam10531 269482001968 Chain length determinant protein; Region: Wzz; cl15801 269482001969 tyrosine kinase; Provisional; Region: PRK11519 269482001970 Chain length determinant protein; Region: Wzz; cl15801 269482001971 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482001972 Nucleotide binding site [chemical binding]; other site 269482001973 DTAP/Switch II; other site 269482001974 Switch I; other site 269482001975 colanic acid exporter; Provisional; Region: PRK10459 269482001976 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482001977 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 269482001978 active site 269482001979 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 269482001980 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482001981 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482001982 Probable Catalytic site; other site 269482001983 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482001984 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482001985 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 269482001986 H-NS histone family; Region: Histone_HNS; pfam00816 269482001987 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482001988 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482001989 Helix-turn-helix domains; Region: HTH; cl00088 269482001990 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482001991 RES domain; Region: RES; cl02411 269482001992 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001993 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482001994 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 269482001995 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482001996 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482001997 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 269482001998 mce related protein; Region: MCE; pfam02470 269482001999 mce related protein; Region: MCE; pfam02470 269482002000 Protein of unknown function (DUF330); Region: DUF330; cl01135 269482002001 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482002002 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482002003 Cupin domain; Region: Cupin_2; cl09118 269482002004 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482002005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002006 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482002007 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482002008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002009 active site 269482002010 phosphorylation site [posttranslational modification] 269482002011 intermolecular recognition site; other site 269482002012 dimerization interface [polypeptide binding]; other site 269482002013 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002014 DNA binding site [nucleotide binding] 269482002015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482002016 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002017 dimer interface [polypeptide binding]; other site 269482002018 phosphorylation site [posttranslational modification] 269482002019 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002020 ATP binding site [chemical binding]; other site 269482002021 Mg2+ binding site [ion binding]; other site 269482002022 G-X-G motif; other site 269482002023 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482002024 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002026 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 269482002027 AMP-binding enzyme; Region: AMP-binding; cl15778 269482002028 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482002029 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482002030 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002032 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 269482002033 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 269482002034 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 269482002035 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 269482002036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002037 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 269482002038 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482002039 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482002040 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002041 active site 269482002042 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482002043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002044 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482002045 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482002046 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 269482002047 beta-ketothiolase; Provisional; Region: PRK09051 269482002048 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482002049 dimer interface [polypeptide binding]; other site 269482002050 active site 269482002051 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 269482002052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002053 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482002054 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 269482002055 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 269482002056 active site 269482002057 catalytic residues [active] 269482002058 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482002059 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482002060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002061 short chain dehydrogenase; Provisional; Region: PRK06180 269482002062 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482002063 NADP binding site [chemical binding]; other site 269482002064 active site 269482002065 steroid binding site; other site 269482002066 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482002067 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482002068 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482002069 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 269482002070 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482002071 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482002072 Ligand Binding Site [chemical binding]; other site 269482002073 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482002074 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 269482002075 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 269482002076 [4Fe-4S] binding site [ion binding]; other site 269482002077 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002078 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002079 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002080 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 269482002081 molybdopterin cofactor binding site; other site 269482002082 nitrate reductase, beta subunit; Region: narH; TIGR01660 269482002083 4Fe-4S binding domain; Region: Fer4; cl02805 269482002084 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 269482002085 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 269482002086 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482002087 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 269482002088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002089 putative substrate translocation pore; other site 269482002090 TfoX N-terminal domain; Region: TfoX_N; cl01167 269482002091 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002092 DNA binding site [nucleotide binding] 269482002093 Predicted ATPase [General function prediction only]; Region: COG3903 269482002094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482002095 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 269482002096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002097 active site 269482002098 phosphorylation site [posttranslational modification] 269482002099 intermolecular recognition site; other site 269482002100 dimerization interface [polypeptide binding]; other site 269482002101 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002102 DNA binding site [nucleotide binding] 269482002103 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269482002104 active site 269482002105 ATP binding site [chemical binding]; other site 269482002106 substrate binding site [chemical binding]; other site 269482002107 activation loop (A-loop); other site 269482002108 hypothetical protein; Provisional; Region: PHA02988 269482002109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482002110 Predicted ATPase [General function prediction only]; Region: COG3899 269482002111 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269482002112 GAF domain; Region: GAF; cl15785 269482002113 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 269482002114 Histidine kinase; Region: HisKA_2; cl06527 269482002115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002116 ATP binding site [chemical binding]; other site 269482002117 Mg2+ binding site [ion binding]; other site 269482002118 G-X-G motif; other site 269482002119 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002121 active site 269482002122 phosphorylation site [posttranslational modification] 269482002123 intermolecular recognition site; other site 269482002124 dimerization interface [polypeptide binding]; other site 269482002125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002126 PAS domain; Region: PAS_9; pfam13426 269482002127 putative active site [active] 269482002128 heme pocket [chemical binding]; other site 269482002129 PAS fold; Region: PAS_3; pfam08447 269482002130 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 269482002131 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002132 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002133 putative active site [active] 269482002134 heme pocket [chemical binding]; other site 269482002135 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002136 dimer interface [polypeptide binding]; other site 269482002137 phosphorylation site [posttranslational modification] 269482002138 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002139 ATP binding site [chemical binding]; other site 269482002140 Mg2+ binding site [ion binding]; other site 269482002141 G-X-G motif; other site 269482002142 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002144 active site 269482002145 phosphorylation site [posttranslational modification] 269482002146 intermolecular recognition site; other site 269482002147 dimerization interface [polypeptide binding]; other site 269482002148 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002150 active site 269482002151 phosphorylation site [posttranslational modification] 269482002152 intermolecular recognition site; other site 269482002153 dimerization interface [polypeptide binding]; other site 269482002154 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482002155 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002156 ATP binding site [chemical binding]; other site 269482002157 Mg2+ binding site [ion binding]; other site 269482002158 G-X-G motif; other site 269482002159 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482002160 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482002161 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482002162 dimer interface [polypeptide binding]; other site 269482002163 putative CheW interface [polypeptide binding]; other site 269482002164 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482002165 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 269482002166 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 269482002167 substrate binding site [chemical binding]; other site 269482002168 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 269482002169 substrate binding site [chemical binding]; other site 269482002170 ligand binding site [chemical binding]; other site 269482002171 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482002172 Helix-turn-helix domains; Region: HTH; cl00088 269482002173 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482002174 dimerization interface [polypeptide binding]; other site 269482002175 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002176 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 269482002177 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002178 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002179 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 269482002180 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002181 PAS domain; Region: PAS_9; pfam13426 269482002182 putative active site [active] 269482002183 heme pocket [chemical binding]; other site 269482002184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002185 metal binding site [ion binding]; metal-binding site 269482002186 active site 269482002187 I-site; other site 269482002188 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482002189 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 269482002190 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 269482002191 active site 269482002192 HIGH motif; other site 269482002193 dimer interface [polypeptide binding]; other site 269482002194 KMSKS motif; other site 269482002195 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 269482002196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002197 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 269482002198 homotrimer interaction site [polypeptide binding]; other site 269482002199 putative active site [active] 269482002200 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 269482002201 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 269482002202 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 269482002203 metal binding site [ion binding]; metal-binding site 269482002204 putative dimer interface [polypeptide binding]; other site 269482002205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002206 Helix-turn-helix domains; Region: HTH; cl00088 269482002207 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 269482002208 putative substrate binding pocket [chemical binding]; other site 269482002209 dimerization interface [polypeptide binding]; other site 269482002210 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482002211 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482002212 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 269482002213 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 269482002214 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 269482002215 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 269482002216 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 269482002217 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482002218 NAD binding site [chemical binding]; other site 269482002219 catalytic Zn binding site [ion binding]; other site 269482002220 structural Zn binding site [ion binding]; other site 269482002221 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 269482002222 dimerization interface [polypeptide binding]; other site 269482002223 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002224 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002225 putative active site [active] 269482002226 heme pocket [chemical binding]; other site 269482002227 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002228 dimer interface [polypeptide binding]; other site 269482002229 phosphorylation site [posttranslational modification] 269482002230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002231 ATP binding site [chemical binding]; other site 269482002232 Mg2+ binding site [ion binding]; other site 269482002233 G-X-G motif; other site 269482002234 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002236 active site 269482002237 phosphorylation site [posttranslational modification] 269482002238 intermolecular recognition site; other site 269482002239 dimerization interface [polypeptide binding]; other site 269482002240 BON domain; Region: BON; cl02771 269482002241 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482002242 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 269482002243 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482002244 Walker A/P-loop; other site 269482002245 ATP binding site [chemical binding]; other site 269482002246 Q-loop/lid; other site 269482002247 ABC transporter signature motif; other site 269482002248 Walker B; other site 269482002249 D-loop; other site 269482002250 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482002251 H-loop/switch region; other site 269482002252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482002253 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002254 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482002255 classical (c) SDRs; Region: SDR_c; cd05233 269482002256 NAD(P) binding site [chemical binding]; other site 269482002257 active site 269482002258 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 269482002259 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482002260 active site 269482002261 motif I; other site 269482002262 motif II; other site 269482002263 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482002264 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002265 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002266 putative active site [active] 269482002267 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482002268 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 269482002269 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 269482002270 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482002271 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482002272 active site 269482002273 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482002274 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002275 putative active site [active] 269482002276 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482002277 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 269482002278 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482002279 Walker A motif; other site 269482002280 ATP binding site [chemical binding]; other site 269482002281 Walker B motif; other site 269482002282 arginine finger; other site 269482002283 Helix-turn-helix domains; Region: HTH; cl00088 269482002284 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482002285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002286 active site 269482002287 phosphorylation site [posttranslational modification] 269482002288 intermolecular recognition site; other site 269482002289 dimerization interface [polypeptide binding]; other site 269482002290 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482002291 Walker A motif; other site 269482002292 ATP binding site [chemical binding]; other site 269482002293 Walker B motif; other site 269482002294 arginine finger; other site 269482002295 Helix-turn-helix domains; Region: HTH; cl00088 269482002296 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482002297 active site 269482002298 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 269482002299 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002300 PAS domain; Region: PAS_9; pfam13426 269482002301 putative active site [active] 269482002302 heme pocket [chemical binding]; other site 269482002303 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002304 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002305 putative active site [active] 269482002306 heme pocket [chemical binding]; other site 269482002307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002308 dimer interface [polypeptide binding]; other site 269482002309 phosphorylation site [posttranslational modification] 269482002310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002311 ATP binding site [chemical binding]; other site 269482002312 Mg2+ binding site [ion binding]; other site 269482002313 G-X-G motif; other site 269482002314 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002316 active site 269482002317 phosphorylation site [posttranslational modification] 269482002318 intermolecular recognition site; other site 269482002319 dimerization interface [polypeptide binding]; other site 269482002320 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482002321 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 269482002322 NAD binding site [chemical binding]; other site 269482002323 putative substrate binding site 2 [chemical binding]; other site 269482002324 putative substrate binding site 1 [chemical binding]; other site 269482002325 active site 269482002326 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 269482002327 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 269482002328 putative ADP-binding pocket [chemical binding]; other site 269482002329 BON domain; Region: BON; cl02771 269482002330 short chain dehydrogenase; Provisional; Region: PRK07109 269482002331 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 269482002332 putative NAD(P) binding site [chemical binding]; other site 269482002333 active site 269482002334 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 269482002335 short chain dehydrogenase; Provisional; Region: PRK06701 269482002336 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 269482002337 NAD binding site [chemical binding]; other site 269482002338 metal binding site [ion binding]; metal-binding site 269482002339 active site 269482002340 Domain of unknown function (DUF305); Region: DUF305; cl15795 269482002341 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482002342 dinuclear metal binding motif [ion binding]; other site 269482002343 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482002344 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482002345 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 269482002346 Fe-S cluster binding site [ion binding]; other site 269482002347 active site 269482002348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002349 active site 269482002350 phosphorylation site [posttranslational modification] 269482002351 intermolecular recognition site; other site 269482002352 dimerization interface [polypeptide binding]; other site 269482002353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002354 Helix-turn-helix domains; Region: HTH; cl00088 269482002355 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 269482002356 putative dimerization interface [polypeptide binding]; other site 269482002357 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482002358 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 269482002359 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482002360 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482002361 citrate-proton symporter; Provisional; Region: PRK15075 269482002362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002363 putative substrate translocation pore; other site 269482002364 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269482002365 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002366 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482002367 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 269482002368 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 269482002369 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 269482002370 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482002371 hydroperoxidase II; Provisional; Region: katE; PRK11249 269482002372 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 269482002373 tetramer interface [polypeptide binding]; other site 269482002374 heme binding pocket [chemical binding]; other site 269482002375 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 269482002376 domain interactions; other site 269482002377 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 269482002378 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 269482002379 putative DNA binding site [nucleotide binding]; other site 269482002380 putative homodimer interface [polypeptide binding]; other site 269482002381 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 269482002382 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 269482002383 active site 269482002384 DNA binding site [nucleotide binding] 269482002385 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 269482002386 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 269482002387 DNA binding site [nucleotide binding] 269482002388 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 269482002389 nucleotide binding site [chemical binding]; other site 269482002390 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482002391 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 269482002392 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482002393 intracellular protease, PfpI family; Region: PfpI; TIGR01382 269482002394 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 269482002395 proposed catalytic triad [active] 269482002396 conserved cys residue [active] 269482002397 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482002398 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 269482002399 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 269482002400 PAS domain; Region: PAS_9; pfam13426 269482002401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002402 metal binding site [ion binding]; metal-binding site 269482002403 active site 269482002404 I-site; other site 269482002405 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482002406 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002407 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482002408 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002409 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002410 H-NS histone family; Region: Histone_HNS; pfam00816 269482002411 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482002412 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482002413 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482002414 Helix-turn-helix domains; Region: HTH; cl00088 269482002415 Integrase core domain; Region: rve; cl01316 269482002416 transcriptional regulator TraR; Provisional; Region: PRK13870 269482002417 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482002418 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482002419 DNA binding residues [nucleotide binding] 269482002420 dimerization interface [polypeptide binding]; other site 269482002421 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 269482002422 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002423 active site 269482002424 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002425 active site 269482002426 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482002427 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482002428 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002429 pyridoxal-dependent decarboxylase, exosortase system type 1 associated; Region: dCO2ase_PEP1; TIGR03099 269482002430 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 269482002431 dimer interface [polypeptide binding]; other site 269482002432 active site 269482002433 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482002434 catalytic residues [active] 269482002435 substrate binding site [chemical binding]; other site 269482002436 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 269482002437 AMP-binding enzyme; Region: AMP-binding; cl15778 269482002438 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 269482002439 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002440 active site 269482002441 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002442 active site 269482002443 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482002444 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002445 active site 269482002446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482002447 DNA-binding site [nucleotide binding]; DNA binding site 269482002448 FCD domain; Region: FCD; cl11656 269482002449 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482002450 TM-ABC transporter signature motif; other site 269482002451 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482002452 TM-ABC transporter signature motif; other site 269482002453 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482002454 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482002455 Walker A/P-loop; other site 269482002456 ATP binding site [chemical binding]; other site 269482002457 Q-loop/lid; other site 269482002458 ABC transporter signature motif; other site 269482002459 Walker B; other site 269482002460 D-loop; other site 269482002461 H-loop/switch region; other site 269482002462 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482002463 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482002464 Walker A/P-loop; other site 269482002465 ATP binding site [chemical binding]; other site 269482002466 Q-loop/lid; other site 269482002467 ABC transporter signature motif; other site 269482002468 Walker B; other site 269482002469 D-loop; other site 269482002470 H-loop/switch region; other site 269482002471 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482002472 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 269482002473 ligand binding site [chemical binding]; other site 269482002474 putative amidase; Provisional; Region: PRK06169 269482002475 Amidase; Region: Amidase; cl11426 269482002476 Amino acid synthesis; Region: AA_synth; pfam06684 269482002477 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482002478 trimer interface [polypeptide binding]; other site 269482002479 eyelet of channel; other site 269482002480 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482002481 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482002482 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482002483 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482002484 catalytic residue [active] 269482002485 TrbC/VIRB2 family; Region: TrbC; cl01583 269482002486 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 269482002487 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 269482002488 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 269482002489 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 269482002490 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 269482002491 Type IV secretion system proteins; Region: T4SS; pfam07996 269482002492 VirB8 protein; Region: VirB8; cl01500 269482002493 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482002494 VirB7 interaction site; other site 269482002495 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269482002496 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 269482002497 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482002498 Walker A motif; other site 269482002499 hexamer interface [polypeptide binding]; other site 269482002500 ATP binding site [chemical binding]; other site 269482002501 Walker B motif; other site 269482002502 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 269482002503 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 269482002504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482002505 Walker A motif; other site 269482002506 ATP binding site [chemical binding]; other site 269482002507 Walker B motif; other site 269482002508 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482002509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269482002510 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 269482002511 Domain of unknown function (DUF932); Region: DUF932; cl12129 269482002512 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002513 dimer interface [polypeptide binding]; other site 269482002514 phosphorylation site [posttranslational modification] 269482002515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002516 ATP binding site [chemical binding]; other site 269482002517 Mg2+ binding site [ion binding]; other site 269482002518 G-X-G motif; other site 269482002519 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 269482002520 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482002521 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 269482002522 active site 269482002523 catalytic site [active] 269482002524 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 269482002525 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 269482002526 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 269482002527 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 269482002528 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 269482002529 active site 269482002530 catalytic site [active] 269482002531 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 269482002532 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 269482002533 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 269482002534 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 269482002535 active site 269482002536 catalytic site [active] 269482002537 glycogen branching enzyme; Provisional; Region: PRK05402 269482002538 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 269482002539 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 269482002540 active site 269482002541 catalytic site [active] 269482002542 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 269482002543 trehalose synthase; Region: treS_nterm; TIGR02456 269482002544 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 269482002545 active site 269482002546 catalytic site [active] 269482002547 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 269482002548 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482002549 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 269482002550 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 269482002551 active site 269482002552 homodimer interface [polypeptide binding]; other site 269482002553 catalytic site [active] 269482002554 acceptor binding site [chemical binding]; other site 269482002555 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482002556 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482002557 putative catalytic site [active] 269482002558 putative metal binding site [ion binding]; other site 269482002559 putative phosphate binding site [ion binding]; other site 269482002560 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 269482002561 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482002562 putative active site [active] 269482002563 putative active site [active] 269482002564 catalytic site [active] 269482002565 catalytic site [active] 269482002566 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 269482002567 putative active site [active] 269482002568 catalytic site [active] 269482002569 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482002570 MgtC family; Region: MgtC; pfam02308 269482002571 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 269482002572 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482002573 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269482002574 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482002575 motif II; other site 269482002576 putative arabinose transporter; Provisional; Region: PRK03545 269482002577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002578 putative substrate translocation pore; other site 269482002579 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 269482002580 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 269482002581 dimer interface [polypeptide binding]; other site 269482002582 active site 269482002583 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 269482002584 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 269482002585 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 269482002586 putative alpha subunit interface [polypeptide binding]; other site 269482002587 putative active site [active] 269482002588 putative substrate binding site [chemical binding]; other site 269482002589 Fe binding site [ion binding]; other site 269482002590 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 269482002591 inter-subunit interface; other site 269482002592 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 269482002593 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482002594 catalytic loop [active] 269482002595 iron binding site [ion binding]; other site 269482002596 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 269482002597 FAD binding pocket [chemical binding]; other site 269482002598 FAD binding motif [chemical binding]; other site 269482002599 phosphate binding motif [ion binding]; other site 269482002600 beta-alpha-beta structure motif; other site 269482002601 NAD binding pocket [chemical binding]; other site 269482002602 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482002603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002604 NAD(P) binding site [chemical binding]; other site 269482002605 active site 269482002606 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 269482002607 homotrimer interaction site [polypeptide binding]; other site 269482002608 putative active site [active] 269482002609 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482002610 Cytochrome c; Region: Cytochrom_C; cl11414 269482002611 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482002612 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482002613 D-pathway; other site 269482002614 Putative ubiquinol binding site [chemical binding]; other site 269482002615 Low-spin heme (heme b) binding site [chemical binding]; other site 269482002616 Putative water exit pathway; other site 269482002617 Binuclear center (heme o3/CuB) [ion binding]; other site 269482002618 K-pathway; other site 269482002619 Putative proton exit pathway; other site 269482002620 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 269482002621 Subunit I/III interface [polypeptide binding]; other site 269482002622 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 269482002623 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482002624 Cytochrome c; Region: Cytochrom_C; cl11414 269482002625 short chain dehydrogenase; Provisional; Region: PRK07109 269482002626 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 269482002627 putative NAD(P) binding site [chemical binding]; other site 269482002628 active site 269482002629 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 269482002630 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269482002631 thiamine pyrophosphate protein; Provisional; Region: PRK08273 269482002632 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 269482002633 PYR/PP interface [polypeptide binding]; other site 269482002634 dimer interface [polypeptide binding]; other site 269482002635 tetramer interface [polypeptide binding]; other site 269482002636 TPP binding site [chemical binding]; other site 269482002637 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482002638 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 269482002639 TPP-binding site [chemical binding]; other site 269482002640 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 269482002641 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 269482002642 putative active site pocket [active] 269482002643 putative metal binding site [ion binding]; other site 269482002644 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 269482002645 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482002646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002647 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482002648 Domain of unknown function (DUF305); Region: DUF305; cl15795 269482002649 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482002650 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482002651 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482002652 FRG domain; Region: FRG; cl07460 269482002653 BON domain; Region: BON; cl02771 269482002654 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 269482002655 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 269482002656 nudix motif; other site 269482002657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002658 active site 269482002659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002660 NAD(P) binding site [chemical binding]; other site 269482002661 active site 269482002662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002663 Helix-turn-helix domains; Region: HTH; cl00088 269482002664 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482002665 putative effector binding pocket; other site 269482002666 dimerization interface [polypeptide binding]; other site 269482002667 PAS domain S-box; Region: sensory_box; TIGR00229 269482002668 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002669 putative active site [active] 269482002670 heme pocket [chemical binding]; other site 269482002671 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002672 metal binding site [ion binding]; metal-binding site 269482002673 active site 269482002674 I-site; other site 269482002675 Integrase core domain; Region: rve; cl01316 269482002676 Integrase core domain; Region: rve_3; cl15866 269482002677 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482002678 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 269482002679 metal binding site [ion binding]; metal-binding site 269482002680 putative dimer interface [polypeptide binding]; other site 269482002681 Predicted membrane protein [Function unknown]; Region: COG2860 269482002682 UPF0126 domain; Region: UPF0126; pfam03458 269482002683 UPF0126 domain; Region: UPF0126; pfam03458 269482002684 Helix-turn-helix domains; Region: HTH; cl00088 269482002685 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482002686 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 269482002687 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482002688 NAD binding site [chemical binding]; other site 269482002689 substrate binding site [chemical binding]; other site 269482002690 putative active site [active] 269482002691 short chain dehydrogenase; Provisional; Region: PRK06197 269482002692 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 269482002693 putative NAD(P) binding site [chemical binding]; other site 269482002694 active site 269482002695 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482002697 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002698 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482002699 GAF domain; Region: GAF; cl15785 269482002700 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002701 PAS fold; Region: PAS_3; pfam08447 269482002702 putative active site [active] 269482002703 heme pocket [chemical binding]; other site 269482002704 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002705 putative active site [active] 269482002706 heme pocket [chemical binding]; other site 269482002707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002708 metal binding site [ion binding]; metal-binding site 269482002709 active site 269482002710 I-site; other site 269482002711 Helix-turn-helix domains; Region: HTH; cl00088 269482002712 Integrase core domain; Region: rve; cl01316 269482002713 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482002714 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 269482002715 dimanganese center [ion binding]; other site 269482002716 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482002717 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482002718 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482002719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002720 putative substrate translocation pore; other site 269482002721 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002722 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482002723 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482002724 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482002725 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 269482002726 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 269482002727 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 269482002728 PhnA protein; Region: PhnA; pfam03831 269482002729 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482002730 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 269482002731 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 269482002732 HipA N-terminal domain; Region: Couple_hipA; cl11853 269482002733 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 269482002734 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482002735 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482002736 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482002737 non-specific DNA binding site [nucleotide binding]; other site 269482002738 salt bridge; other site 269482002739 sequence-specific DNA binding site [nucleotide binding]; other site 269482002740 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 269482002741 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 269482002742 heme-binding site [chemical binding]; other site 269482002743 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482002744 FAD binding pocket [chemical binding]; other site 269482002745 FAD binding motif [chemical binding]; other site 269482002746 phosphate binding motif [ion binding]; other site 269482002747 beta-alpha-beta structure motif; other site 269482002748 NAD binding pocket [chemical binding]; other site 269482002749 Heme binding pocket [chemical binding]; other site 269482002750 MgtC family; Region: MgtC; pfam02308 269482002751 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002752 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482002753 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 269482002754 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 269482002755 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 269482002756 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002757 dimer interface [polypeptide binding]; other site 269482002758 phosphorylation site [posttranslational modification] 269482002759 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002760 ATP binding site [chemical binding]; other site 269482002761 Mg2+ binding site [ion binding]; other site 269482002762 G-X-G motif; other site 269482002763 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002765 active site 269482002766 phosphorylation site [posttranslational modification] 269482002767 intermolecular recognition site; other site 269482002768 dimerization interface [polypeptide binding]; other site 269482002769 oxidoreductase; Provisional; Region: PRK06128 269482002770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002771 NAD(P) binding site [chemical binding]; other site 269482002772 active site 269482002773 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482002774 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 269482002775 DNA photolyase; Region: DNA_photolyase; pfam00875 269482002776 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 269482002777 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482002778 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482002779 substrate binding pocket [chemical binding]; other site 269482002780 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482002781 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 269482002782 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482002783 DNA binding residues [nucleotide binding] 269482002784 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 269482002785 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 269482002786 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 269482002787 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 269482002788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002789 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 269482002790 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482002791 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482002792 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482002793 GTP cyclohydrolase I; Provisional; Region: PLN03044 269482002794 active site 269482002795 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482002796 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482002797 S-adenosylmethionine binding site [chemical binding]; other site 269482002798 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 269482002799 Uncharacterized conserved protein [Function unknown]; Region: COG3496 269482002800 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 269482002801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002802 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 269482002803 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482002804 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482002805 Phospholipid methyltransferase; Region: PEMT; cl00763 269482002806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 269482002807 Anti-sigma-K factor rskA; Region: RskA; pfam10099 269482002808 RNA polymerase sigma factor; Provisional; Region: PRK12514 269482002809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482002810 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482002811 DNA binding residues [nucleotide binding] 269482002812 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 269482002813 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 269482002814 active site clefts [active] 269482002815 zinc binding site [ion binding]; other site 269482002816 dimer interface [polypeptide binding]; other site 269482002817 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482002818 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482002819 conserved cys residue [active] 269482002820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002822 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482002823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002824 active site 269482002825 phosphorylation site [posttranslational modification] 269482002826 intermolecular recognition site; other site 269482002827 dimerization interface [polypeptide binding]; other site 269482002828 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482002829 DNA binding residues [nucleotide binding] 269482002830 dimerization interface [polypeptide binding]; other site 269482002831 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482002832 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002833 ATP binding site [chemical binding]; other site 269482002834 Mg2+ binding site [ion binding]; other site 269482002835 G-X-G motif; other site 269482002836 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482002837 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002839 active site 269482002840 phosphorylation site [posttranslational modification] 269482002841 intermolecular recognition site; other site 269482002842 dimerization interface [polypeptide binding]; other site 269482002843 Cupin domain; Region: Cupin_2; cl09118 269482002844 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482002845 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002847 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 269482002848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002849 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482002850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002851 putative substrate translocation pore; other site 269482002852 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482002853 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482002854 Helix-turn-helix domains; Region: HTH; cl00088 269482002855 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482002856 dimerization interface [polypeptide binding]; other site 269482002857 substrate binding pocket [chemical binding]; other site 269482002858 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482002859 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 269482002860 High-affinity nickel-transport protein; Region: NicO; cl00964 269482002861 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 269482002862 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 269482002863 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 269482002864 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269482002865 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482002866 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 269482002867 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 269482002868 putative substrate-binding site; other site 269482002869 nickel binding site [ion binding]; other site 269482002870 HupF/HypC family; Region: HupF_HypC; cl00394 269482002871 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 269482002872 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 269482002873 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482002874 Rubredoxin; Region: Rubredoxin; pfam00301 269482002875 iron binding site [ion binding]; other site 269482002876 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 269482002877 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269482002878 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 269482002879 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 269482002880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482002881 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 269482002882 HupF/HypC family; Region: HupF_HypC; cl00394 269482002883 Hydrogenase formation hypA family; Region: HypD; cl12072 269482002884 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 269482002885 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 269482002886 dimerization interface [polypeptide binding]; other site 269482002887 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 269482002888 ATP binding site [chemical binding]; other site 269482002889 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482002890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002891 active site 269482002892 phosphorylation site [posttranslational modification] 269482002893 intermolecular recognition site; other site 269482002894 dimerization interface [polypeptide binding]; other site 269482002895 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482002896 Walker A motif; other site 269482002897 ATP binding site [chemical binding]; other site 269482002898 Walker B motif; other site 269482002899 arginine finger; other site 269482002900 Helix-turn-helix domains; Region: HTH; cl00088 269482002901 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 269482002902 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269482002903 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 269482002904 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002905 dimer interface [polypeptide binding]; other site 269482002906 phosphorylation site [posttranslational modification] 269482002907 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002908 ATP binding site [chemical binding]; other site 269482002909 Mg2+ binding site [ion binding]; other site 269482002910 G-X-G motif; other site 269482002911 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 269482002912 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482002913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482002914 putative acyl-acceptor binding pocket; other site 269482002915 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482002916 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482002917 Predicted membrane protein [Function unknown]; Region: COG4648 269482002918 AMP-binding enzyme; Region: AMP-binding; cl15778 269482002919 peptide synthase; Validated; Region: PRK05691 269482002920 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 269482002921 active site 2 [active] 269482002922 dimer interface [polypeptide binding]; other site 269482002923 active site 1 [active] 269482002924 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 269482002925 Ligand binding site; other site 269482002926 Putative Catalytic site; other site 269482002927 DXD motif; other site 269482002928 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 269482002929 putative acyl-acceptor binding pocket; other site 269482002930 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482002931 active sites [active] 269482002932 tetramer interface [polypeptide binding]; other site 269482002933 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482002934 active site 269482002935 Predicted exporter [General function prediction only]; Region: COG4258 269482002936 Protein export membrane protein; Region: SecD_SecF; cl14618 269482002937 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 269482002938 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482002939 dimer interface [polypeptide binding]; other site 269482002940 active site 269482002941 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 269482002942 putative active site 1 [active] 269482002943 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482002944 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482002945 NAD(P) binding site [chemical binding]; other site 269482002946 homotetramer interface [polypeptide binding]; other site 269482002947 homodimer interface [polypeptide binding]; other site 269482002948 active site 269482002949 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 269482002950 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482002951 dimer interface [polypeptide binding]; other site 269482002952 active site 269482002953 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 269482002954 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482002955 dimer interface [polypeptide binding]; other site 269482002956 active site 269482002957 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 269482002958 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482002959 S-adenosylmethionine binding site [chemical binding]; other site 269482002960 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482002961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002962 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 269482002963 binuclear metal center [ion binding]; other site 269482002964 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 269482002965 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482002966 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 269482002967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002968 active site 269482002969 phosphorylation site [posttranslational modification] 269482002970 intermolecular recognition site; other site 269482002971 dimerization interface [polypeptide binding]; other site 269482002972 Helix-turn-helix domains; Region: HTH; cl00088 269482002973 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482002974 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002975 dimer interface [polypeptide binding]; other site 269482002976 phosphorylation site [posttranslational modification] 269482002977 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002978 ATP binding site [chemical binding]; other site 269482002979 Mg2+ binding site [ion binding]; other site 269482002980 G-X-G motif; other site 269482002981 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269482002982 dimer interface [polypeptide binding]; other site 269482002983 [2Fe-2S] cluster binding site [ion binding]; other site 269482002984 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 269482002985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002986 oxidoreductase; Provisional; Region: PRK10015 269482002987 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482002988 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482002989 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482002990 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482002991 Ligand binding site [chemical binding]; other site 269482002992 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482002993 Nitrogen fixation protein NifW; Region: NifW; cl03935 269482002994 serine O-acetyltransferase; Region: cysE; TIGR01172 269482002995 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482002996 trimer interface [polypeptide binding]; other site 269482002997 active site 269482002998 substrate binding site [chemical binding]; other site 269482002999 CoA binding site [chemical binding]; other site 269482003000 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 269482003001 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 269482003002 active site 269482003003 catalytic residues [active] 269482003004 metal binding site [ion binding]; metal-binding site 269482003005 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482003006 catalytic loop [active] 269482003007 iron binding site [ion binding]; other site 269482003008 chaperone protein HscA; Provisional; Region: hscA; PRK05183 269482003009 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482003010 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482003011 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 269482003012 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 269482003013 trimerization site [polypeptide binding]; other site 269482003014 active site 269482003015 Nif-specific regulatory protein; Region: nifA; TIGR01817 269482003016 GAF domain; Region: GAF; cl15785 269482003017 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003018 Walker A motif; other site 269482003019 ATP binding site [chemical binding]; other site 269482003020 Walker B motif; other site 269482003021 arginine finger; other site 269482003022 Helix-turn-helix domains; Region: HTH; cl00088 269482003023 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 269482003024 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482003025 FeS/SAM binding site; other site 269482003026 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 269482003027 hypothetical protein; Provisional; Region: PRK13795 269482003028 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482003029 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 269482003030 NifZ domain; Region: NifZ; pfam04319 269482003031 NifZ domain; Region: NifZ; pfam04319 269482003032 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 269482003033 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 269482003034 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482003035 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482003036 catalytic residue [active] 269482003037 NifT/FixU protein; Region: NifT; cl02351 269482003038 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 269482003039 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 269482003040 inhibitor-cofactor binding pocket; inhibition site 269482003041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482003042 catalytic residue [active] 269482003043 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482003044 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482003045 catalytic loop [active] 269482003046 iron binding site [ion binding]; other site 269482003047 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 269482003048 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482003049 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482003050 active site residue [active] 269482003051 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482003052 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482003053 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482003054 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482003055 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482003056 apolar tunnel; other site 269482003057 heme binding site [chemical binding]; other site 269482003058 dimerization interface [polypeptide binding]; other site 269482003059 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 269482003060 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 269482003061 Nucleotide-binding sites [chemical binding]; other site 269482003062 Walker A motif; other site 269482003063 Switch I region of nucleotide binding site; other site 269482003064 Fe4S4 binding sites [ion binding]; other site 269482003065 Switch II region of nucleotide binding site; other site 269482003066 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 269482003067 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 269482003068 MoFe protein alpha/beta subunit interactions; other site 269482003069 Alpha subunit P cluster binding residues; other site 269482003070 FeMoco binding residues [chemical binding]; other site 269482003071 MoFe protein alpha subunit/Fe protein contacts; other site 269482003072 MoFe protein dimer/ dimer interactions; other site 269482003073 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 269482003074 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 269482003075 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 269482003076 MoFe protein beta/alpha subunit interactions; other site 269482003077 Beta subunit P cluster binding residues; other site 269482003078 MoFe protein beta subunit/Fe protein contacts; other site 269482003079 MoFe protein dimer/ dimer interactions; other site 269482003080 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 269482003081 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 269482003082 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 269482003083 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 269482003084 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 269482003085 Protein of unknown function, DUF269; Region: DUF269; cl03973 269482003086 Rop-like; Region: Rop-like; cl02247 269482003087 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 269482003088 4Fe-4S binding domain; Region: Fer4; cl02805 269482003089 NifQ; Region: NifQ; pfam04891 269482003090 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 269482003091 heme-binding site [chemical binding]; other site 269482003092 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 269482003093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003094 dimer interface [polypeptide binding]; other site 269482003095 conserved gate region; other site 269482003096 putative PBP binding loops; other site 269482003097 ABC-ATPase subunit interface; other site 269482003098 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482003099 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482003100 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 269482003101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003102 Walker A/P-loop; other site 269482003103 ATP binding site [chemical binding]; other site 269482003104 Q-loop/lid; other site 269482003105 ABC transporter signature motif; other site 269482003106 Walker B; other site 269482003107 D-loop; other site 269482003108 H-loop/switch region; other site 269482003109 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 269482003110 Helix-turn-helix domains; Region: HTH; cl00088 269482003111 TOBE domain; Region: TOBE_2; cl01440 269482003112 TOBE domain; Region: TOBE_2; cl01440 269482003113 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 269482003114 Cupin domain; Region: Cupin_2; cl09118 269482003115 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 269482003116 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482003117 Helix-turn-helix domains; Region: HTH; cl00088 269482003118 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 269482003119 dimerization interface [polypeptide binding]; other site 269482003120 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003121 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003122 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003123 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003124 cyanate hydratase; Validated; Region: PRK02866 269482003125 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 269482003126 oligomer interface [polypeptide binding]; other site 269482003127 active site 269482003128 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 269482003129 active site clefts [active] 269482003130 zinc binding site [ion binding]; other site 269482003131 dimer interface [polypeptide binding]; other site 269482003132 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482003133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482003134 DNA-binding site [nucleotide binding]; DNA binding site 269482003135 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482003136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482003137 homodimer interface [polypeptide binding]; other site 269482003138 catalytic residue [active] 269482003139 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 269482003140 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482003141 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 269482003142 putative active site [active] 269482003143 catalytic triad [active] 269482003144 putative dimer interface [polypeptide binding]; other site 269482003145 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 269482003146 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482003147 FeS/SAM binding site; other site 269482003148 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482003149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482003150 Coenzyme A binding pocket [chemical binding]; other site 269482003151 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 269482003152 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 269482003153 dimerization interface [polypeptide binding]; other site 269482003154 putative ATP binding site [chemical binding]; other site 269482003155 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 269482003156 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482003157 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 269482003158 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 269482003159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003160 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 269482003161 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 269482003162 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 269482003163 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 269482003164 B12 binding site [chemical binding]; other site 269482003165 cobalt ligand [ion binding]; other site 269482003166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482003167 DNA-binding site [nucleotide binding]; DNA binding site 269482003168 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482003169 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482003170 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482003171 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482003172 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 269482003173 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 269482003174 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482003175 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482003176 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 269482003177 RES domain; Region: RES; cl02411 269482003178 Phage integrase protein; Region: DUF3701; pfam12482 269482003179 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482003180 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003181 active site 269482003182 DNA binding site [nucleotide binding] 269482003183 Int/Topo IB signature motif; other site 269482003184 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482003185 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 269482003186 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003187 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003188 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482003189 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482003190 Integrase core domain; Region: rve; cl01316 269482003191 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482003192 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482003193 Helix-turn-helix domains; Region: HTH; cl00088 269482003194 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 269482003195 active site 269482003196 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482003197 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482003198 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482003199 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003200 active site 269482003201 DNA binding site [nucleotide binding] 269482003202 Int/Topo IB signature motif; other site 269482003203 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003204 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003205 High-affinity nickel-transport protein; Region: NicO; cl00964 269482003206 High-affinity nickel-transport protein; Region: NicO; cl00964 269482003207 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482003208 putative homodimer interface [polypeptide binding]; other site 269482003209 putative homotetramer interface [polypeptide binding]; other site 269482003210 putative metal binding site [ion binding]; other site 269482003211 putative homodimer-homodimer interface [polypeptide binding]; other site 269482003212 putative allosteric switch controlling residues; other site 269482003213 Phage integrase protein; Region: DUF3701; pfam12482 269482003214 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482003215 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482003216 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482003217 Int/Topo IB signature motif; other site 269482003218 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003219 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003221 dimer interface [polypeptide binding]; other site 269482003222 conserved gate region; other site 269482003223 putative PBP binding loops; other site 269482003224 ABC-ATPase subunit interface; other site 269482003225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003226 Walker A/P-loop; other site 269482003227 ATP binding site [chemical binding]; other site 269482003228 Q-loop/lid; other site 269482003229 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482003230 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482003231 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482003232 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482003233 active site 269482003234 metal binding site [ion binding]; metal-binding site 269482003235 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482003236 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482003237 active site residue [active] 269482003238 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482003239 Chromate transporter; Region: Chromate_transp; pfam02417 269482003240 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482003241 Chromate transporter; Region: Chromate_transp; pfam02417 269482003242 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482003243 Chromate transporter; Region: Chromate_transp; pfam02417 269482003244 Chromate transporter; Region: Chromate_transp; pfam02417 269482003245 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482003246 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482003247 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482003248 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482003249 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482003250 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482003251 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003252 catalytic site [active] 269482003253 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003254 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003255 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482003256 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 269482003257 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 269482003258 TIR domain; Region: TIR_2; cl15770 269482003259 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003260 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482003261 active site 269482003262 DNA binding site [nucleotide binding] 269482003263 Int/Topo IB signature motif; other site 269482003264 Integrase core domain; Region: rve; cl01316 269482003265 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482003266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003267 TniQ; Region: TniQ; pfam06527 269482003268 Helix-turn-helix domains; Region: HTH; cl00088 269482003269 putative transposase OrfB; Reviewed; Region: PHA02517 269482003270 Integrase core domain; Region: rve; cl01316 269482003271 Integrase core domain; Region: rve_3; cl15866 269482003272 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482003273 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482003274 trimer interface [polypeptide binding]; other site 269482003275 eyelet of channel; other site 269482003276 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482003277 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482003278 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003279 Helix-turn-helix domains; Region: HTH; cl00088 269482003280 Integrase core domain; Region: rve; cl01316 269482003281 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482003283 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003285 metal binding site [ion binding]; metal-binding site 269482003286 active site 269482003287 I-site; other site 269482003288 BON domain; Region: BON; cl02771 269482003289 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482003290 dinuclear metal binding motif [ion binding]; other site 269482003291 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482003292 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482003293 Helix-turn-helix domains; Region: HTH; cl00088 269482003294 Integrase core domain; Region: rve; cl01316 269482003295 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003296 H-NS histone family; Region: Histone_HNS; pfam00816 269482003297 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482003298 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003299 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003300 active site 269482003301 phosphorylation site [posttranslational modification] 269482003302 intermolecular recognition site; other site 269482003303 dimerization interface [polypeptide binding]; other site 269482003304 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003305 DNA binding residues [nucleotide binding] 269482003306 dimerization interface [polypeptide binding]; other site 269482003307 Cytochrome c; Region: Cytochrom_C; cl11414 269482003308 Cytochrome c; Region: Cytochrom_C; cl11414 269482003309 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482003310 Cytochrome c; Region: Cytochrom_C; cl11414 269482003311 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482003312 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 269482003313 Putative D-pathway homolog; other site 269482003314 Low-spin heme binding site [chemical binding]; other site 269482003315 Subunit I/II interface [polypeptide binding]; other site 269482003316 Putative Q-pathway; other site 269482003317 Putative alternate electron transfer pathway; other site 269482003318 Putative water exit pathway; other site 269482003319 Binuclear center (active site) [active] 269482003320 Putative K-pathway homolog; other site 269482003321 Putative proton exit pathway; other site 269482003322 Subunit I/IIa interface [polypeptide binding]; other site 269482003323 Electron transfer pathway; other site 269482003324 Cytochrome c; Region: Cytochrom_C; cl11414 269482003325 Cytochrome c; Region: Cytochrom_C; cl11414 269482003326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003327 Integrase core domain; Region: rve; cl01316 269482003328 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003329 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482003330 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003331 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 269482003332 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482003333 NAD(P) binding site [chemical binding]; other site 269482003334 homotetramer interface [polypeptide binding]; other site 269482003335 homodimer interface [polypeptide binding]; other site 269482003336 active site 269482003337 acetate kinase; Region: ackA; TIGR00016 269482003338 Acetokinase family; Region: Acetate_kinase; cl01029 269482003339 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 269482003340 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003342 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482003343 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003345 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482003346 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003347 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 269482003348 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482003349 Walker A/P-loop; other site 269482003350 ATP binding site [chemical binding]; other site 269482003351 Q-loop/lid; other site 269482003352 ABC transporter signature motif; other site 269482003353 Walker B; other site 269482003354 D-loop; other site 269482003355 H-loop/switch region; other site 269482003356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003357 Walker A/P-loop; other site 269482003358 ATP binding site [chemical binding]; other site 269482003359 Q-loop/lid; other site 269482003360 ABC transporter signature motif; other site 269482003361 Walker B; other site 269482003362 D-loop; other site 269482003363 H-loop/switch region; other site 269482003364 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482003365 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482003366 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482003367 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482003368 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482003369 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 269482003370 acetate kinase; Region: ackA; TIGR00016 269482003371 Acetokinase family; Region: Acetate_kinase; cl01029 269482003372 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 269482003373 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 269482003374 NAD binding site [chemical binding]; other site 269482003375 homotetramer interface [polypeptide binding]; other site 269482003376 homodimer interface [polypeptide binding]; other site 269482003377 substrate binding site [chemical binding]; other site 269482003378 active site 269482003379 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 269482003380 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003381 TniQ; Region: TniQ; pfam06527 269482003382 Phage integrase protein; Region: DUF3701; pfam12482 269482003383 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482003384 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482003385 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482003386 Int/Topo IB signature motif; other site 269482003387 Helix-turn-helix domains; Region: HTH; cl00088 269482003388 Rrf2 family protein; Region: rrf2_super; TIGR00738 269482003389 NnrS protein; Region: NnrS; cl01258 269482003390 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 269482003391 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 269482003392 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482003393 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482003394 ligand binding site [chemical binding]; other site 269482003395 flexible hinge region; other site 269482003396 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482003397 putative switch regulator; other site 269482003398 non-specific DNA interactions [nucleotide binding]; other site 269482003399 DNA binding site [nucleotide binding] 269482003400 sequence specific DNA binding site [nucleotide binding]; other site 269482003401 putative cAMP binding site [chemical binding]; other site 269482003402 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 269482003403 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482003404 Cupin domain; Region: Cupin_2; cl09118 269482003405 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482003406 MULE transposase domain; Region: MULE; pfam10551 269482003407 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 269482003408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482003409 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003410 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482003411 Helix-turn-helix domains; Region: HTH; cl00088 269482003412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482003413 Transcription factor Pcc1; Region: Pcc1; cl12080 269482003414 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482003415 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482003416 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482003417 Integrase core domain; Region: rve; cl01316 269482003418 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482003419 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482003420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003421 metal binding site [ion binding]; metal-binding site 269482003422 active site 269482003423 I-site; other site 269482003424 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003426 active site 269482003427 phosphorylation site [posttranslational modification] 269482003428 intermolecular recognition site; other site 269482003429 dimerization interface [polypeptide binding]; other site 269482003430 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003431 DNA binding residues [nucleotide binding] 269482003432 dimerization interface [polypeptide binding]; other site 269482003433 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003434 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003435 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003436 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003437 H-NS histone family; Region: Histone_HNS; pfam00816 269482003438 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482003439 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003440 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482003441 dinuclear metal binding motif [ion binding]; other site 269482003442 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482003443 BON domain; Region: BON; cl02771 269482003444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003445 metal binding site [ion binding]; metal-binding site 269482003446 active site 269482003447 I-site; other site 269482003448 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003449 metal binding site [ion binding]; metal-binding site 269482003450 active site 269482003451 I-site; other site 269482003452 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482003453 PemK-like protein; Region: PemK; cl00995 269482003454 H-NS histone family; Region: Histone_HNS; pfam00816 269482003455 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482003456 Helix-turn-helix domains; Region: HTH; cl00088 269482003457 Winged helix-turn helix; Region: HTH_29; pfam13551 269482003458 Helix-turn-helix domains; Region: HTH; cl00088 269482003459 Integrase core domain; Region: rve; cl01316 269482003460 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482003461 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003462 Walker A motif; other site 269482003463 ATP binding site [chemical binding]; other site 269482003464 Walker B motif; other site 269482003465 arginine finger; other site 269482003466 Integrase core domain; Region: rve; cl01316 269482003467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003468 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482003469 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 269482003470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003471 Family description; Region: UvrD_C_2; cl15862 269482003472 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 269482003473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003474 Family description; Region: UvrD_C_2; cl15862 269482003475 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 269482003476 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 269482003477 WYL domain; Region: WYL; cl14852 269482003478 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 269482003479 G1 box; other site 269482003480 GTP/Mg2+ binding site [chemical binding]; other site 269482003481 G2 box; other site 269482003482 Switch I region; other site 269482003483 G3 box; other site 269482003484 Switch II region; other site 269482003485 G4 box; other site 269482003486 G5 box; other site 269482003487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003488 Dynamin family; Region: Dynamin_N; pfam00350 269482003489 G1 box; other site 269482003490 GTP/Mg2+ binding site [chemical binding]; other site 269482003491 G2 box; other site 269482003492 Switch I region; other site 269482003493 G3 box; other site 269482003494 Switch II region; other site 269482003495 G4 box; other site 269482003496 G5 box; other site 269482003497 translation initiation factor IF-2; Validated; Region: infB; PRK05306 269482003498 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003499 G1 box; other site 269482003500 GTP/Mg2+ binding site [chemical binding]; other site 269482003501 G2 box; other site 269482003502 Switch I region; other site 269482003503 G3 box; other site 269482003504 Switch II region; other site 269482003505 G4 box; other site 269482003506 G5 box; other site 269482003507 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003508 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003509 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003510 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003511 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003512 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003513 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482003514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003515 WYL domain; Region: WYL; cl14852 269482003516 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003517 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003518 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003519 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482003520 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 269482003521 putative active site [active] 269482003522 homodimer interface [polypeptide binding]; other site 269482003523 catalytic site [active] 269482003524 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003525 putative active site [active] 269482003526 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003527 putative active site [active] 269482003528 catalytic site [active] 269482003529 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 269482003530 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482003531 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482003532 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482003533 nucleotide binding region [chemical binding]; other site 269482003534 ATP-binding site [chemical binding]; other site 269482003535 Restriction endonuclease; Region: Mrr_cat; cl00516 269482003536 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269482003537 Family description; Region: UvrD_C_2; cl15862 269482003538 EcsC protein family; Region: EcsC; pfam12787 269482003539 Helix-turn-helix domains; Region: HTH; cl00088 269482003540 putative transposase OrfB; Reviewed; Region: PHA02517 269482003541 HTH-like domain; Region: HTH_21; pfam13276 269482003542 Integrase core domain; Region: rve; cl01316 269482003543 Integrase core domain; Region: rve_3; cl15866 269482003544 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 269482003545 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 269482003546 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 269482003547 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003548 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003549 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482003550 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003552 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 269482003553 NAD(P) binding site [chemical binding]; other site 269482003554 catalytic residues [active] 269482003555 choline dehydrogenase; Validated; Region: PRK02106 269482003556 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482003557 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482003558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003559 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482003560 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482003561 trimer interface [polypeptide binding]; other site 269482003562 eyelet of channel; other site 269482003563 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482003564 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482003565 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482003566 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482003567 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 269482003568 Cysteine-rich domain; Region: CCG; pfam02754 269482003569 Cysteine-rich domain; Region: CCG; pfam02754 269482003570 D-lactate dehydrogenase; Provisional; Region: PRK11183 269482003571 FAD binding domain; Region: FAD_binding_4; pfam01565 269482003572 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 269482003573 Helix-turn-helix domains; Region: HTH; cl00088 269482003574 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 269482003575 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 269482003576 putative dimerization interface [polypeptide binding]; other site 269482003577 putative substrate binding pocket [chemical binding]; other site 269482003578 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 269482003579 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482003580 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482003581 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 269482003582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482003583 Helix-turn-helix domains; Region: HTH; cl00088 269482003584 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482003585 dimerization interface [polypeptide binding]; other site 269482003586 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482003587 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482003588 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482003589 dimer interface [polypeptide binding]; other site 269482003590 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482003591 dimerization interface [polypeptide binding]; other site 269482003592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482003593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482003594 dimer interface [polypeptide binding]; other site 269482003595 putative CheW interface [polypeptide binding]; other site 269482003596 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482003597 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482003598 Walker A/P-loop; other site 269482003599 ATP binding site [chemical binding]; other site 269482003600 Q-loop/lid; other site 269482003601 ABC transporter signature motif; other site 269482003602 Walker B; other site 269482003603 D-loop; other site 269482003604 H-loop/switch region; other site 269482003605 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482003606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003607 dimer interface [polypeptide binding]; other site 269482003608 conserved gate region; other site 269482003609 putative PBP binding loops; other site 269482003610 ABC-ATPase subunit interface; other site 269482003611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003612 dimer interface [polypeptide binding]; other site 269482003613 conserved gate region; other site 269482003614 putative PBP binding loops; other site 269482003615 ABC-ATPase subunit interface; other site 269482003616 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482003617 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482003618 substrate binding pocket [chemical binding]; other site 269482003619 membrane-bound complex binding site; other site 269482003620 hinge residues; other site 269482003621 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482003622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482003623 dimer interface [polypeptide binding]; other site 269482003624 phosphorylation site [posttranslational modification] 269482003625 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003626 ATP binding site [chemical binding]; other site 269482003627 G-X-G motif; other site 269482003628 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 269482003629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003630 active site 269482003631 phosphorylation site [posttranslational modification] 269482003632 intermolecular recognition site; other site 269482003633 dimerization interface [polypeptide binding]; other site 269482003634 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003635 DNA binding site [nucleotide binding] 269482003636 Cytochrome b562; Region: Cytochrom_B562; cl01546 269482003637 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482003638 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 269482003639 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003640 Ligand Binding Site [chemical binding]; other site 269482003641 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003642 Ligand Binding Site [chemical binding]; other site 269482003643 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482003644 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482003645 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 269482003646 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482003647 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 269482003648 Cation efflux family; Region: Cation_efflux; cl00316 269482003649 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482003650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003651 active site 269482003652 phosphorylation site [posttranslational modification] 269482003653 intermolecular recognition site; other site 269482003654 dimerization interface [polypeptide binding]; other site 269482003655 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003656 sensor protein QseC; Provisional; Region: PRK10337 269482003657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003658 ATP binding site [chemical binding]; other site 269482003659 Mg2+ binding site [ion binding]; other site 269482003660 G-X-G motif; other site 269482003661 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482003662 Dihaem cytochrome c; Region: DHC; pfam09626 269482003663 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 269482003664 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482003665 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 269482003666 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 269482003667 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 269482003668 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 269482003669 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 269482003670 putative active site [active] 269482003671 putative metal binding site [ion binding]; other site 269482003672 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 269482003673 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 269482003674 putative substrate binding site [chemical binding]; other site 269482003675 putative ATP binding site [chemical binding]; other site 269482003676 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 269482003677 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 269482003678 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 269482003679 active site 269482003680 dimer interface [polypeptide binding]; other site 269482003681 effector binding site; other site 269482003682 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269482003683 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003684 Walker A motif; other site 269482003685 ATP binding site [chemical binding]; other site 269482003686 Walker B motif; other site 269482003687 arginine finger; other site 269482003688 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482003689 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 269482003690 BON domain; Region: BON; cl02771 269482003691 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003692 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 269482003693 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003694 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003696 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482003697 Walker A/P-loop; other site 269482003698 ATP binding site [chemical binding]; other site 269482003699 Q-loop/lid; other site 269482003700 ABC transporter signature motif; other site 269482003701 Walker B; other site 269482003702 D-loop; other site 269482003703 H-loop/switch region; other site 269482003704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003705 Walker A/P-loop; other site 269482003706 ATP binding site [chemical binding]; other site 269482003707 Q-loop/lid; other site 269482003708 ABC transporter signature motif; other site 269482003709 Walker B; other site 269482003710 D-loop; other site 269482003711 H-loop/switch region; other site 269482003712 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003713 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482003714 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 269482003715 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003716 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482003717 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482003718 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 269482003719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482003720 FtsX-like permease family; Region: FtsX; cl15850 269482003721 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482003722 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269482003723 Walker A/P-loop; other site 269482003724 ATP binding site [chemical binding]; other site 269482003725 Q-loop/lid; other site 269482003726 ABC transporter signature motif; other site 269482003727 Walker B; other site 269482003728 D-loop; other site 269482003729 H-loop/switch region; other site 269482003730 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 269482003731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482003732 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003733 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003734 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 269482003735 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482003736 Beta-Casp domain; Region: Beta-Casp; cl12567 269482003737 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 269482003738 Protein of unknown function DUF91; Region: DUF91; cl00709 269482003739 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 269482003740 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482003741 catalytic Zn binding site [ion binding]; other site 269482003742 structural Zn binding site [ion binding]; other site 269482003743 NAD(P) binding site [chemical binding]; other site 269482003744 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 269482003745 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 269482003746 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 269482003747 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482003748 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482003749 NAD(P) binding site [chemical binding]; other site 269482003750 homotetramer interface [polypeptide binding]; other site 269482003751 homodimer interface [polypeptide binding]; other site 269482003752 active site 269482003753 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482003754 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482003755 Acetokinase family; Region: Acetate_kinase; cl01029 269482003756 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003757 Ligand Binding Site [chemical binding]; other site 269482003758 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003759 Ligand Binding Site [chemical binding]; other site 269482003760 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003761 Ligand Binding Site [chemical binding]; other site 269482003762 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003763 Ligand Binding Site [chemical binding]; other site 269482003764 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003766 active site 269482003767 phosphorylation site [posttranslational modification] 269482003768 intermolecular recognition site; other site 269482003769 dimerization interface [polypeptide binding]; other site 269482003770 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003771 DNA binding residues [nucleotide binding] 269482003772 dimerization interface [polypeptide binding]; other site 269482003773 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482003774 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482003775 ligand binding site [chemical binding]; other site 269482003776 flexible hinge region; other site 269482003777 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482003778 putative switch regulator; other site 269482003779 non-specific DNA interactions [nucleotide binding]; other site 269482003780 DNA binding site [nucleotide binding] 269482003781 sequence specific DNA binding site [nucleotide binding]; other site 269482003782 putative cAMP binding site [chemical binding]; other site 269482003783 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482003784 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 269482003785 putative NAD(P) binding site [chemical binding]; other site 269482003786 putative substrate binding site [chemical binding]; other site 269482003787 catalytic Zn binding site [ion binding]; other site 269482003788 structural Zn binding site [ion binding]; other site 269482003789 hypothetical protein; Provisional; Region: PRK07877 269482003790 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 269482003791 FMN binding site [chemical binding]; other site 269482003792 dimer interface [polypeptide binding]; other site 269482003793 Cytochrome c; Region: Cytochrom_C; cl11414 269482003794 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482003795 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 269482003796 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482003797 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482003798 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269482003799 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 269482003800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003801 metal binding site [ion binding]; metal-binding site 269482003802 active site 269482003803 I-site; other site 269482003804 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003806 active site 269482003807 phosphorylation site [posttranslational modification] 269482003808 intermolecular recognition site; other site 269482003809 dimerization interface [polypeptide binding]; other site 269482003810 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003811 DNA binding residues [nucleotide binding] 269482003812 dimerization interface [polypeptide binding]; other site 269482003813 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 269482003814 BON domain; Region: BON; cl02771 269482003815 BON domain; Region: BON; cl02771 269482003816 BON domain; Region: BON; cl02771 269482003817 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 269482003818 putative FMN binding site [chemical binding]; other site 269482003819 NADPH bind site [chemical binding]; other site 269482003820 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269482003821 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 269482003822 putative dimer interface [polypeptide binding]; other site 269482003823 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482003824 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003825 Ligand Binding Site [chemical binding]; other site 269482003826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 269482003827 AAA domain; Region: AAA_33; pfam13671 269482003828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003829 active site 269482003830 FOG: CBS domain [General function prediction only]; Region: COG0517 269482003831 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482003832 FOG: CBS domain [General function prediction only]; Region: COG0517 269482003833 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482003834 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482003835 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482003836 ligand binding site [chemical binding]; other site 269482003837 flexible hinge region; other site 269482003838 Helix-turn-helix domains; Region: HTH; cl00088 269482003839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482003840 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482003841 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482003842 substrate binding pocket [chemical binding]; other site 269482003843 membrane-bound complex binding site; other site 269482003844 hinge residues; other site 269482003845 Haemagglutinin; Region: HIM; pfam05662 269482003846 Haemagglutinin; Region: HIM; pfam05662 269482003847 YadA-like C-terminal region; Region: YadA; pfam03895 269482003848 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482003849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003850 active site 269482003851 phosphorylation site [posttranslational modification] 269482003852 intermolecular recognition site; other site 269482003853 dimerization interface [polypeptide binding]; other site 269482003854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003856 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482003857 Helix-turn-helix domains; Region: HTH; cl00088 269482003858 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482003859 dimerization interface [polypeptide binding]; other site 269482003860 DoxX; Region: DoxX; cl00976 269482003861 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003862 DNA binding site [nucleotide binding] 269482003863 Predicted ATPase [General function prediction only]; Region: COG3903 269482003864 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003865 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482003866 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482003867 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482003868 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482003869 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482003870 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003871 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003872 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003874 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 269482003875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482003876 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482003877 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 269482003878 dimer interface [polypeptide binding]; other site 269482003879 putative metal binding site [ion binding]; other site 269482003880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003881 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 269482003882 Protein of unknown function, DUF485; Region: DUF485; cl01231 269482003883 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 269482003884 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 269482003885 Na binding site [ion binding]; other site 269482003886 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 269482003887 Cytochrome c; Region: Cytochrom_C; cl11414 269482003888 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482003889 Cytochrome c; Region: Cytochrom_C; cl11414 269482003890 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 269482003891 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482003892 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482003893 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482003894 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482003895 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482003896 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 269482003897 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482003898 transcriptional regulator; Provisional; Region: PRK10632 269482003899 Helix-turn-helix domains; Region: HTH; cl00088 269482003900 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482003901 putative effector binding pocket; other site 269482003902 putative dimerization interface [polypeptide binding]; other site 269482003903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482003904 putative substrate translocation pore; other site 269482003905 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482003906 FMN binding site [chemical binding]; other site 269482003907 active site 269482003908 substrate binding site [chemical binding]; other site 269482003909 catalytic residue [active] 269482003910 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 269482003911 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 269482003912 active site 269482003913 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003914 DNA binding site [nucleotide binding] 269482003915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482003916 Predicted ATPase [General function prediction only]; Region: COG3903 269482003917 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 269482003918 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003920 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003921 Helix-turn-helix domains; Region: HTH; cl00088 269482003922 transcriptional activator TtdR; Provisional; Region: PRK09801 269482003923 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482003924 putative effector binding pocket; other site 269482003925 dimerization interface [polypeptide binding]; other site 269482003926 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 269482003927 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482003928 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 269482003929 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482003930 Helix-turn-helix domains; Region: HTH; cl00088 269482003931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003932 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482003933 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 269482003934 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482003935 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482003936 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003937 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482003938 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482003939 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482003940 dimer interface [polypeptide binding]; other site 269482003941 phosphorylation site [posttranslational modification] 269482003942 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003943 ATP binding site [chemical binding]; other site 269482003944 Mg2+ binding site [ion binding]; other site 269482003945 G-X-G motif; other site 269482003946 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 269482003947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003948 active site 269482003949 phosphorylation site [posttranslational modification] 269482003950 intermolecular recognition site; other site 269482003951 dimerization interface [polypeptide binding]; other site 269482003952 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003953 DNA binding site [nucleotide binding] 269482003954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482003955 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 269482003956 Coenzyme A binding pocket [chemical binding]; other site 269482003957 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482003958 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482003959 metal binding site [ion binding]; metal-binding site 269482003960 putative dimer interface [polypeptide binding]; other site 269482003961 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482003962 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482003963 NAD binding site [chemical binding]; other site 269482003964 catalytic residues [active] 269482003965 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482003966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003968 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482003969 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 269482003970 Cupin domain; Region: Cupin_2; cl09118 269482003971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482003974 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482003975 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482003976 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482003977 Walker A/P-loop; other site 269482003978 ATP binding site [chemical binding]; other site 269482003979 Q-loop/lid; other site 269482003980 ABC transporter signature motif; other site 269482003981 Walker B; other site 269482003982 D-loop; other site 269482003983 H-loop/switch region; other site 269482003984 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482003985 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482003986 Walker A/P-loop; other site 269482003987 ATP binding site [chemical binding]; other site 269482003988 Q-loop/lid; other site 269482003989 ABC transporter signature motif; other site 269482003990 Walker B; other site 269482003991 D-loop; other site 269482003992 H-loop/switch region; other site 269482003993 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482003994 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 269482003995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482003996 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269482003997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003998 dimer interface [polypeptide binding]; other site 269482003999 conserved gate region; other site 269482004000 putative PBP binding loops; other site 269482004001 ABC-ATPase subunit interface; other site 269482004002 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 269482004003 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482004004 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482004005 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482004006 dimerization interface [polypeptide binding]; other site 269482004007 ligand binding site [chemical binding]; other site 269482004008 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 269482004009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004012 DNA-binding site [nucleotide binding]; DNA binding site 269482004013 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482004014 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482004015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004016 homodimer interface [polypeptide binding]; other site 269482004017 catalytic residue [active] 269482004018 Cache domain; Region: Cache_1; pfam02743 269482004019 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482004020 dimerization interface [polypeptide binding]; other site 269482004021 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482004022 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004023 dimer interface [polypeptide binding]; other site 269482004024 putative CheW interface [polypeptide binding]; other site 269482004025 Cache domain; Region: Cache_2; cl07034 269482004026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482004027 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004028 dimer interface [polypeptide binding]; other site 269482004029 putative CheW interface [polypeptide binding]; other site 269482004030 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 269482004031 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482004032 motif II; other site 269482004033 Predicted acetyltransferase [General function prediction only]; Region: COG3153 269482004034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482004035 Coenzyme A binding pocket [chemical binding]; other site 269482004036 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 269482004037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004038 hypothetical protein; Provisional; Region: PRK05965 269482004039 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482004040 inhibitor-cofactor binding pocket; inhibition site 269482004041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004042 catalytic residue [active] 269482004043 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482004044 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482004045 putative DNA binding site [nucleotide binding]; other site 269482004046 putative Zn2+ binding site [ion binding]; other site 269482004047 AsnC family; Region: AsnC_trans_reg; pfam01037 269482004048 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004049 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482004050 tetramerization interface [polypeptide binding]; other site 269482004051 NAD(P) binding site [chemical binding]; other site 269482004052 catalytic residues [active] 269482004053 Cache domain; Region: Cache_1; pfam02743 269482004054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482004055 metal binding site [ion binding]; metal-binding site 269482004056 active site 269482004057 I-site; other site 269482004058 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482004059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004060 dimer interface [polypeptide binding]; other site 269482004061 putative CheW interface [polypeptide binding]; other site 269482004062 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 269482004063 active site 269482004064 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 269482004065 Protein of unknown function DUF72; Region: DUF72; cl00777 269482004066 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 269482004067 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482004068 Helix-turn-helix domains; Region: HTH; cl00088 269482004069 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004070 putative effector binding pocket; other site 269482004071 dimerization interface [polypeptide binding]; other site 269482004072 NmrA-like family; Region: NmrA; pfam05368 269482004073 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 269482004074 NADP binding site [chemical binding]; other site 269482004075 active site 269482004076 regulatory binding site [polypeptide binding]; other site 269482004077 Cupin domain; Region: Cupin_2; cl09118 269482004078 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482004079 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482004080 active site 269482004081 catalytic tetrad [active] 269482004082 Helix-turn-helix domains; Region: HTH; cl00088 269482004083 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 269482004084 putative effector binding pocket; other site 269482004085 putative dimerization interface [polypeptide binding]; other site 269482004086 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 269482004087 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 269482004088 transmembrane helices; other site 269482004089 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004090 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004092 active site 269482004093 phosphorylation site [posttranslational modification] 269482004094 intermolecular recognition site; other site 269482004095 dimerization interface [polypeptide binding]; other site 269482004096 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004097 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482004098 Walker A motif; other site 269482004099 ATP binding site [chemical binding]; other site 269482004100 Walker B motif; other site 269482004101 arginine finger; other site 269482004102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482004103 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482004104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004105 ATP binding site [chemical binding]; other site 269482004106 G-X-G motif; other site 269482004107 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 269482004108 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 269482004109 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004110 TM-ABC transporter signature motif; other site 269482004111 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 269482004112 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482004113 Walker A/P-loop; other site 269482004114 ATP binding site [chemical binding]; other site 269482004115 Q-loop/lid; other site 269482004116 ABC transporter signature motif; other site 269482004117 Walker B; other site 269482004118 D-loop; other site 269482004119 H-loop/switch region; other site 269482004120 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482004121 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 269482004122 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 269482004123 putative ligand binding site [chemical binding]; other site 269482004124 xylulokinase; Provisional; Region: PRK15027 269482004125 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 269482004126 N- and C-terminal domain interface [polypeptide binding]; other site 269482004127 active site 269482004128 catalytic site [active] 269482004129 metal binding site [ion binding]; metal-binding site 269482004130 xylulose binding site [chemical binding]; other site 269482004131 putative ATP binding site [chemical binding]; other site 269482004132 homodimer interface [polypeptide binding]; other site 269482004133 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 269482004134 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 269482004135 putative dimerization interface [polypeptide binding]; other site 269482004136 putative ligand binding site [chemical binding]; other site 269482004137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004139 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 269482004140 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 269482004141 active site 269482004142 catalytic residues [active] 269482004143 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004144 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482004145 putative substrate translocation pore; other site 269482004146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004147 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482004148 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 269482004149 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482004150 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482004151 DNA binding residues [nucleotide binding] 269482004152 dimerization interface [polypeptide binding]; other site 269482004153 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 269482004154 putative metal binding site [ion binding]; other site 269482004155 putative homodimer interface [polypeptide binding]; other site 269482004156 putative homotetramer interface [polypeptide binding]; other site 269482004157 putative homodimer-homodimer interface [polypeptide binding]; other site 269482004158 putative allosteric switch controlling residues; other site 269482004159 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 269482004160 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 269482004161 substrate binding site [chemical binding]; other site 269482004162 catalytic Zn binding site [ion binding]; other site 269482004163 NAD binding site [chemical binding]; other site 269482004164 structural Zn binding site [ion binding]; other site 269482004165 dimer interface [polypeptide binding]; other site 269482004166 NnrS protein; Region: NnrS; cl01258 269482004167 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004168 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004169 Dienelactone hydrolase family; Region: DLH; pfam01738 269482004170 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004171 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482004172 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 269482004173 classical (c) SDRs; Region: SDR_c; cd05233 269482004174 NAD(P) binding site [chemical binding]; other site 269482004175 active site 269482004176 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482004177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482004178 Flavin Reductases; Region: FlaRed; cl00801 269482004179 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 269482004180 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482004181 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 269482004182 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482004183 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482004184 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482004185 hexamer interface [polypeptide binding]; other site 269482004186 Walker B motif; other site 269482004187 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482004189 active site 269482004190 phosphorylation site [posttranslational modification] 269482004191 intermolecular recognition site; other site 269482004192 dimerization interface [polypeptide binding]; other site 269482004193 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 269482004194 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482004195 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482004196 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 269482004197 TadE-like protein; Region: TadE; cl10688 269482004198 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 269482004199 TadE-like protein; Region: TadE; cl10688 269482004200 TadE-like protein; Region: TadE; cl10688 269482004201 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 269482004202 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482004203 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482004204 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 269482004205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004206 Walker A motif; other site 269482004207 ATP binding site [chemical binding]; other site 269482004208 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 269482004209 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 269482004210 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269482004211 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 269482004212 Ligand binding site; other site 269482004213 Putative Catalytic site; other site 269482004214 DXD motif; other site 269482004215 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004216 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 269482004217 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 269482004218 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 269482004219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482004220 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004221 dimer interface [polypeptide binding]; other site 269482004222 phosphorylation site [posttranslational modification] 269482004223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004224 ATP binding site [chemical binding]; other site 269482004225 Mg2+ binding site [ion binding]; other site 269482004226 G-X-G motif; other site 269482004227 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 269482004228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004229 active site 269482004230 phosphorylation site [posttranslational modification] 269482004231 intermolecular recognition site; other site 269482004232 dimerization interface [polypeptide binding]; other site 269482004233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482004234 Zn2+ binding site [ion binding]; other site 269482004235 Mg2+ binding site [ion binding]; other site 269482004236 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269482004237 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 269482004238 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004239 substrate binding pocket [chemical binding]; other site 269482004240 membrane-bound complex binding site; other site 269482004241 hinge residues; other site 269482004242 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482004243 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482004244 active site 269482004245 catalytic tetrad [active] 269482004246 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482004247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004248 Helix-turn-helix domains; Region: HTH; cl00088 269482004249 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482004250 putative effector binding pocket; other site 269482004251 putative dimerization interface [polypeptide binding]; other site 269482004252 hypothetical protein; Provisional; Region: PRK07208 269482004253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004254 UDP-galactopyranose mutase; Region: GLF; pfam03275 269482004255 GtrA-like protein; Region: GtrA; cl00971 269482004256 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 269482004257 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269482004258 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269482004259 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482004260 Walker A/P-loop; other site 269482004261 ATP binding site [chemical binding]; other site 269482004262 Q-loop/lid; other site 269482004263 ABC transporter signature motif; other site 269482004264 Walker B; other site 269482004265 D-loop; other site 269482004266 H-loop/switch region; other site 269482004267 excinuclease ABC, A subunit; Region: uvra; TIGR00630 269482004268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482004269 Walker A/P-loop; other site 269482004270 ATP binding site [chemical binding]; other site 269482004271 Q-loop/lid; other site 269482004272 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269482004273 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 269482004274 H-NS histone family; Region: Histone_HNS; pfam00816 269482004275 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482004276 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 269482004277 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 269482004278 active site 269482004279 substrate binding site [chemical binding]; other site 269482004280 metal binding site [ion binding]; metal-binding site 269482004281 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 269482004282 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004283 binding surface 269482004284 TPR motif; other site 269482004285 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004286 TPR motif; other site 269482004287 binding surface 269482004288 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 269482004289 TPR motif; other site 269482004290 binding surface 269482004291 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004292 TPR motif; other site 269482004293 binding surface 269482004294 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 269482004295 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 269482004296 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 269482004297 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269482004298 DXD motif; other site 269482004299 PilZ domain; Region: PilZ; cl01260 269482004300 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 269482004301 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482004302 P-loop; other site 269482004303 Magnesium ion binding site [ion binding]; other site 269482004304 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482004305 Magnesium ion binding site [ion binding]; other site 269482004306 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 269482004307 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 269482004308 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 269482004309 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482004310 active site 269482004311 tetramer interface; other site 269482004312 putative glycosyl transferase; Provisional; Region: PRK10307 269482004313 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 269482004314 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482004315 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482004316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004317 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482004318 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 269482004319 putative ADP-binding pocket [chemical binding]; other site 269482004320 putative acyl transferase; Provisional; Region: PRK10502 269482004321 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 269482004322 putative trimer interface [polypeptide binding]; other site 269482004323 putative active site [active] 269482004324 putative substrate binding site [chemical binding]; other site 269482004325 putative CoA binding site [chemical binding]; other site 269482004326 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482004327 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482004328 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482004329 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482004330 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 269482004331 MatE; Region: MatE; cl10513 269482004332 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 269482004333 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 269482004334 NADP binding site [chemical binding]; other site 269482004335 active site 269482004336 putative substrate binding site [chemical binding]; other site 269482004337 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 269482004338 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 269482004339 NADP-binding site; other site 269482004340 homotetramer interface [polypeptide binding]; other site 269482004341 substrate binding site [chemical binding]; other site 269482004342 homodimer interface [polypeptide binding]; other site 269482004343 active site 269482004344 tyrosine kinase; Provisional; Region: PRK11519 269482004345 Chain length determinant protein; Region: Wzz; cl15801 269482004346 Chain length determinant protein; Region: Wzz; cl15801 269482004347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482004348 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482004349 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482004350 active site 269482004351 polysaccharide export protein Wza; Provisional; Region: PRK15078 269482004352 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482004353 SLBB domain; Region: SLBB; pfam10531 269482004354 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482004355 Bacterial sugar transferase; Region: Bac_transf; cl00939 269482004356 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482004357 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482004358 Substrate binding site; other site 269482004359 Cupin domain; Region: Cupin_2; cl09118 269482004360 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004362 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 269482004363 active site 269482004364 GDP-Mannose binding site [chemical binding]; other site 269482004365 dimer interface [polypeptide binding]; other site 269482004366 modified nudix motif 269482004367 metal binding site [ion binding]; metal-binding site 269482004368 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004369 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 269482004370 conserved cys residue [active] 269482004371 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004372 Helix-turn-helix domains; Region: HTH; cl00088 269482004373 Integrase core domain; Region: rve; cl01316 269482004374 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482004375 trimer interface [polypeptide binding]; other site 269482004376 eyelet of channel; other site 269482004377 YadA-like C-terminal region; Region: YadA; pfam03895 269482004378 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004379 Helix-turn-helix domains; Region: HTH; cl00088 269482004380 Integrase core domain; Region: rve; cl01316 269482004381 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004383 active site 269482004384 phosphorylation site [posttranslational modification] 269482004385 intermolecular recognition site; other site 269482004386 dimerization interface [polypeptide binding]; other site 269482004387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004389 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 269482004390 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 269482004391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 269482004392 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004393 dimer interface [polypeptide binding]; other site 269482004394 phosphorylation site [posttranslational modification] 269482004395 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004396 ATP binding site [chemical binding]; other site 269482004397 Mg2+ binding site [ion binding]; other site 269482004398 G-X-G motif; other site 269482004399 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004400 TM-ABC transporter signature motif; other site 269482004401 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004402 TM-ABC transporter signature motif; other site 269482004403 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482004404 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482004405 Walker A/P-loop; other site 269482004406 ATP binding site [chemical binding]; other site 269482004407 Q-loop/lid; other site 269482004408 ABC transporter signature motif; other site 269482004409 Walker B; other site 269482004410 D-loop; other site 269482004411 H-loop/switch region; other site 269482004412 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482004413 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 269482004414 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482004415 putative ligand binding site [chemical binding]; other site 269482004416 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 269482004417 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 269482004418 active site 269482004419 DNA binding site [nucleotide binding] 269482004420 Int/Topo IB signature motif; other site 269482004421 catalytic residues [active] 269482004422 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 269482004423 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482004424 FeS/SAM binding site; other site 269482004425 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 269482004426 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 269482004427 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 269482004428 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482004429 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482004430 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004431 Walker A motif; other site 269482004432 ATP binding site [chemical binding]; other site 269482004433 Walker B motif; other site 269482004434 arginine finger; other site 269482004435 Helix-turn-helix domains; Region: HTH; cl00088 269482004436 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 269482004437 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 269482004438 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482004439 N-terminal plug; other site 269482004440 ligand-binding site [chemical binding]; other site 269482004441 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 269482004442 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 269482004443 dimer interface [polypeptide binding]; other site 269482004444 Trp docking motif [polypeptide binding]; other site 269482004445 active site 269482004446 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004447 substrate binding pocket [chemical binding]; other site 269482004448 membrane-bound complex binding site; other site 269482004449 hinge residues; other site 269482004450 Cytochrome c; Region: Cytochrom_C; cl11414 269482004451 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482004452 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 269482004453 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482004454 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482004455 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482004456 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482004457 DNA binding residues [nucleotide binding] 269482004458 acetyl-CoA synthetase; Provisional; Region: PRK00174 269482004459 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 269482004460 AMP-binding enzyme; Region: AMP-binding; cl15778 269482004461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482004462 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482004463 trimer interface [polypeptide binding]; other site 269482004464 eyelet of channel; other site 269482004465 proline/glycine betaine transporter; Provisional; Region: PRK10642 269482004466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004467 putative substrate translocation pore; other site 269482004468 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 269482004469 DctM-like transporters; Region: DctM; pfam06808 269482004470 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 269482004471 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 269482004472 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 269482004473 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 269482004474 chaperone protein DnaJ; Provisional; Region: PRK14282 269482004475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004476 DNA-binding site [nucleotide binding]; DNA binding site 269482004477 FCD domain; Region: FCD; cl11656 269482004478 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482004479 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482004480 inhibitor site; inhibition site 269482004481 active site 269482004482 dimer interface [polypeptide binding]; other site 269482004483 catalytic residue [active] 269482004484 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482004485 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269482004486 Uncharacterized conserved protein [Function unknown]; Region: COG5476 269482004487 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 269482004488 MlrC C-terminus; Region: MlrC_C; pfam07171 269482004489 allantoate amidohydrolase; Reviewed; Region: PRK12893 269482004490 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482004491 active site 269482004492 metal binding site [ion binding]; metal-binding site 269482004493 dimer interface [polypeptide binding]; other site 269482004494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482004495 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482004496 Walker A/P-loop; other site 269482004497 ATP binding site [chemical binding]; other site 269482004498 Q-loop/lid; other site 269482004499 ABC transporter signature motif; other site 269482004500 Walker B; other site 269482004501 D-loop; other site 269482004502 H-loop/switch region; other site 269482004503 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482004504 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482004505 Walker A/P-loop; other site 269482004506 ATP binding site [chemical binding]; other site 269482004507 Q-loop/lid; other site 269482004508 ABC transporter signature motif; other site 269482004509 Walker B; other site 269482004510 D-loop; other site 269482004511 H-loop/switch region; other site 269482004512 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482004513 TM-ABC transporter signature motif; other site 269482004514 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482004515 TM-ABC transporter signature motif; other site 269482004516 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482004517 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 269482004518 putative ligand binding site [chemical binding]; other site 269482004519 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482004520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004521 DNA-binding site [nucleotide binding]; DNA binding site 269482004522 FCD domain; Region: FCD; cl11656 269482004523 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482004524 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004525 NAD binding site [chemical binding]; other site 269482004526 catalytic residues [active] 269482004527 hypothetical protein; Provisional; Region: PRK06541 269482004528 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482004529 inhibitor-cofactor binding pocket; inhibition site 269482004530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004531 catalytic residue [active] 269482004532 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482004533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004535 benzoate transport; Region: 2A0115; TIGR00895 269482004536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004537 putative substrate translocation pore; other site 269482004538 H-NS histone family; Region: Histone_HNS; pfam00816 269482004539 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482004540 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 269482004541 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482004542 NADP binding site [chemical binding]; other site 269482004543 active site 269482004544 putative substrate binding site [chemical binding]; other site 269482004545 DoxX; Region: DoxX; cl00976 269482004546 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 269482004547 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482004548 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482004549 Helix-turn-helix domains; Region: HTH; cl00088 269482004550 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004551 putative effector binding pocket; other site 269482004552 dimerization interface [polypeptide binding]; other site 269482004553 Pirin-related protein [General function prediction only]; Region: COG1741 269482004554 Cupin domain; Region: Cupin_2; cl09118 269482004555 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482004556 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 269482004557 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 269482004558 putative active site [active] 269482004559 putative NTP binding site [chemical binding]; other site 269482004560 putative nucleic acid binding site [nucleotide binding]; other site 269482004561 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 269482004562 LrgB-like family; Region: LrgB; cl00596 269482004563 LrgA family; Region: LrgA; cl00608 269482004564 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004565 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482004566 substrate binding pocket [chemical binding]; other site 269482004567 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004568 OsmC-like protein; Region: OsmC; cl00767 269482004569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482004570 Helix-turn-helix domains; Region: HTH; cl00088 269482004571 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482004572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482004573 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482004574 Walker A/P-loop; other site 269482004575 ATP binding site [chemical binding]; other site 269482004576 Q-loop/lid; other site 269482004577 ABC transporter signature motif; other site 269482004578 Walker B; other site 269482004579 D-loop; other site 269482004580 H-loop/switch region; other site 269482004581 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482004582 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482004583 dimerization interface [polypeptide binding]; other site 269482004584 ligand binding site [chemical binding]; other site 269482004585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004586 Helix-turn-helix domains; Region: HTH; cl00088 269482004587 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004588 dimerization interface [polypeptide binding]; other site 269482004589 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004590 Helix-turn-helix domains; Region: HTH; cl00088 269482004591 Integrase core domain; Region: rve; cl01316 269482004592 LysE type translocator; Region: LysE; cl00565 269482004593 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482004594 FAD binding domain; Region: FAD_binding_4; pfam01565 269482004595 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482004596 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482004597 Helix-turn-helix domains; Region: HTH; cl00088 269482004598 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482004599 dimerization interface [polypeptide binding]; other site 269482004600 substrate binding pocket [chemical binding]; other site 269482004601 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 269482004602 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 269482004603 rod shape-determining protein MreB; Provisional; Region: PRK13930 269482004604 Cell division protein FtsA; Region: FtsA; cl11496 269482004605 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 269482004606 active site 269482004607 nucleophile elbow; other site 269482004608 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482004609 Surface antigen; Region: Bac_surface_Ag; cl03097 269482004610 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004611 dimer interface [polypeptide binding]; other site 269482004612 phosphorylation site [posttranslational modification] 269482004613 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004614 ATP binding site [chemical binding]; other site 269482004615 Mg2+ binding site [ion binding]; other site 269482004616 G-X-G motif; other site 269482004617 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 269482004618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004619 active site 269482004620 phosphorylation site [posttranslational modification] 269482004621 intermolecular recognition site; other site 269482004622 dimerization interface [polypeptide binding]; other site 269482004623 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482004624 DNA binding site [nucleotide binding] 269482004625 Glutaminase; Region: Glutaminase; cl00907 269482004626 LysE type translocator; Region: LysE; cl00565 269482004627 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 269482004628 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482004629 DNA binding residues [nucleotide binding] 269482004630 putative dimer interface [polypeptide binding]; other site 269482004631 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482004632 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482004633 Leucine carboxyl methyltransferase; Region: LCM; cl01306 269482004634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004635 D-galactonate transporter; Region: 2A0114; TIGR00893 269482004636 putative substrate translocation pore; other site 269482004637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004638 Helix-turn-helix domains; Region: HTH; cl00088 269482004639 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004640 dimerization interface [polypeptide binding]; other site 269482004641 amidase; Provisional; Region: PRK07486 269482004642 Amidase; Region: Amidase; cl11426 269482004643 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 269482004644 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482004645 catalytic residue [active] 269482004646 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004647 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482004648 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482004649 Isochorismatase family; Region: Isochorismatase; pfam00857 269482004650 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 269482004651 catalytic triad [active] 269482004652 conserved cis-peptide bond; other site 269482004653 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 269482004654 B1 nucleotide binding pocket [chemical binding]; other site 269482004655 B2 nucleotide binding pocket [chemical binding]; other site 269482004656 CAS motifs; other site 269482004657 active site 269482004658 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 269482004659 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482004660 substrate binding site [chemical binding]; other site 269482004661 oxyanion hole (OAH) forming residues; other site 269482004662 trimer interface [polypeptide binding]; other site 269482004663 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482004664 enoyl-CoA hydratase; Provisional; Region: PRK09076 269482004665 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482004666 substrate binding site [chemical binding]; other site 269482004667 oxyanion hole (OAH) forming residues; other site 269482004668 trimer interface [polypeptide binding]; other site 269482004669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004670 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 269482004671 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482004672 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004673 tetrameric interface [polypeptide binding]; other site 269482004674 NAD binding site [chemical binding]; other site 269482004675 catalytic residues [active] 269482004676 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482004677 AMP-binding enzyme; Region: AMP-binding; cl15778 269482004678 AMP-binding enzyme; Region: AMP-binding; cl15778 269482004679 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482004680 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482004681 active site 269482004682 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482004683 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004685 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 269482004686 active site residues [active] 269482004687 dimer interface [polypeptide binding]; other site 269482004688 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 269482004689 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 269482004690 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482004691 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 269482004692 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 269482004693 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482004694 Helix-turn-helix domains; Region: HTH; cl00088 269482004695 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004696 dimerization interface [polypeptide binding]; other site 269482004697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482004698 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482004699 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482004700 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482004701 GAF domain; Region: GAF; cl15785 269482004702 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004703 Walker A motif; other site 269482004704 ATP binding site [chemical binding]; other site 269482004705 Walker B motif; other site 269482004706 arginine finger; other site 269482004707 Helix-turn-helix domains; Region: HTH; cl00088 269482004708 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482004709 catalytic loop [active] 269482004710 iron binding site [ion binding]; other site 269482004711 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482004712 Bacterial Ig-like domain; Region: Big_5; cl01012 269482004713 Protein of unknown function (DUF461); Region: DUF461; cl01071 269482004714 LysE type translocator; Region: LysE; cl00565 269482004715 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 269482004716 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482004717 active site 269482004718 ATP binding site [chemical binding]; other site 269482004719 substrate binding site [chemical binding]; other site 269482004720 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004721 dimer interface [polypeptide binding]; other site 269482004722 phosphorylation site [posttranslational modification] 269482004723 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004724 ATP binding site [chemical binding]; other site 269482004725 Mg2+ binding site [ion binding]; other site 269482004726 G-X-G motif; other site 269482004727 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004729 active site 269482004730 phosphorylation site [posttranslational modification] 269482004731 intermolecular recognition site; other site 269482004732 dimerization interface [polypeptide binding]; other site 269482004733 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482004734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004735 active site 269482004736 phosphorylation site [posttranslational modification] 269482004737 intermolecular recognition site; other site 269482004738 dimerization interface [polypeptide binding]; other site 269482004739 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482004740 DNA binding residues [nucleotide binding] 269482004741 dimerization interface [polypeptide binding]; other site 269482004742 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 269482004743 Pectate lyase; Region: Pec_lyase_C; cl01593 269482004744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004745 Helix-turn-helix domains; Region: HTH; cl00088 269482004746 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 269482004747 putative dimerization interface [polypeptide binding]; other site 269482004748 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482004749 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 269482004750 inhibitor-cofactor binding pocket; inhibition site 269482004751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004752 catalytic residue [active] 269482004753 Cupin domain; Region: Cupin_2; cl09118 269482004754 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482004755 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 269482004756 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482004757 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 269482004758 dimer interface [polypeptide binding]; other site 269482004759 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 269482004760 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482004761 Walker A/P-loop; other site 269482004762 ATP binding site [chemical binding]; other site 269482004763 Q-loop/lid; other site 269482004764 ABC transporter signature motif; other site 269482004765 Walker B; other site 269482004766 D-loop; other site 269482004767 H-loop/switch region; other site 269482004768 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 269482004769 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482004770 Walker A/P-loop; other site 269482004771 ATP binding site [chemical binding]; other site 269482004772 Q-loop/lid; other site 269482004773 ABC transporter signature motif; other site 269482004774 Walker B; other site 269482004775 D-loop; other site 269482004776 H-loop/switch region; other site 269482004777 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 269482004778 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 269482004779 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482004780 TM-ABC transporter signature motif; other site 269482004781 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482004782 TM-ABC transporter signature motif; other site 269482004783 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 269482004784 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482004785 dimerization interface [polypeptide binding]; other site 269482004786 ligand binding site [chemical binding]; other site 269482004787 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 269482004788 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482004789 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482004790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004791 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482004792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004793 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482004794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004795 DNA-binding site [nucleotide binding]; DNA binding site 269482004796 FCD domain; Region: FCD; cl11656 269482004797 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 269482004798 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 269482004799 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 269482004800 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482004801 putative ligand binding site [chemical binding]; other site 269482004802 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004803 TM-ABC transporter signature motif; other site 269482004804 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482004805 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482004806 Walker A/P-loop; other site 269482004807 ATP binding site [chemical binding]; other site 269482004808 Q-loop/lid; other site 269482004809 ABC transporter signature motif; other site 269482004810 Walker B; other site 269482004811 D-loop; other site 269482004812 H-loop/switch region; other site 269482004813 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482004814 short chain dehydrogenase; Provisional; Region: PRK08628 269482004815 classical (c) SDRs; Region: SDR_c; cd05233 269482004816 NAD(P) binding site [chemical binding]; other site 269482004817 active site 269482004818 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 269482004819 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 269482004820 putative active site pocket [active] 269482004821 metal binding site [ion binding]; metal-binding site 269482004822 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482004823 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482004824 short chain dehydrogenase; Provisional; Region: PRK06138 269482004825 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 269482004826 NAD binding site [chemical binding]; other site 269482004827 homotetramer interface [polypeptide binding]; other site 269482004828 homodimer interface [polypeptide binding]; other site 269482004829 active site 269482004830 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482004831 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482004832 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 269482004833 Protein of unknown function (DUF971); Region: DUF971; cl01414 269482004834 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 269482004835 substrate binding pocket [chemical binding]; other site 269482004836 active site 269482004837 iron coordination sites [ion binding]; other site 269482004838 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482004839 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482004840 active site 269482004841 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 269482004842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004843 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482004844 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 269482004845 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482004846 NMT1-like family; Region: NMT1_2; cl15260 269482004847 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482004848 Helix-turn-helix domains; Region: HTH; cl00088 269482004849 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004850 dimerization interface [polypeptide binding]; other site 269482004851 malic enzyme; Reviewed; Region: PRK12861 269482004852 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482004853 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482004854 putative NAD(P) binding site [chemical binding]; other site 269482004855 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482004856 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482004857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482004858 catalytic residue [active] 269482004859 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482004860 Helix-turn-helix domains; Region: HTH; cl00088 269482004861 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004862 putative effector binding pocket; other site 269482004863 dimerization interface [polypeptide binding]; other site 269482004864 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482004865 classical (c) SDRs; Region: SDR_c; cd05233 269482004866 NAD(P) binding site [chemical binding]; other site 269482004867 active site 269482004868 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004869 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482004870 conserved cys residue [active] 269482004871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004872 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482004873 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004874 substrate binding pocket [chemical binding]; other site 269482004875 membrane-bound complex binding site; other site 269482004876 hinge residues; other site 269482004877 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 269482004878 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 269482004879 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482004880 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482004881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004882 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 269482004883 Helix-turn-helix domains; Region: HTH; cl00088 269482004884 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 269482004885 putative dimerization interface [polypeptide binding]; other site 269482004886 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 269482004887 enterobactin exporter EntS; Provisional; Region: PRK10489 269482004888 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482004889 trimer interface [polypeptide binding]; other site 269482004890 eyelet of channel; other site 269482004891 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482004892 NMT1-like family; Region: NMT1_2; cl15260 269482004893 choline-sulfatase; Region: chol_sulfatase; TIGR03417 269482004894 Sulfatase; Region: Sulfatase; cl10460 269482004895 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 269482004896 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 269482004897 Helix-turn-helix domains; Region: HTH; cl00088 269482004898 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482004899 dimerization interface [polypeptide binding]; other site 269482004900 substrate binding pocket [chemical binding]; other site 269482004901 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 269482004902 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 269482004903 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 269482004904 putative active site [active] 269482004905 putative substrate binding site [chemical binding]; other site 269482004906 putative cosubstrate binding site; other site 269482004907 catalytic site [active] 269482004908 Amino acid permease; Region: AA_permease_2; pfam13520 269482004909 NMT1-like family; Region: NMT1_2; cl15260 269482004910 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 269482004911 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482004912 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 269482004913 FAD binding pocket [chemical binding]; other site 269482004914 FAD binding motif [chemical binding]; other site 269482004915 phosphate binding motif [ion binding]; other site 269482004916 beta-alpha-beta structure motif; other site 269482004917 NAD binding pocket [chemical binding]; other site 269482004918 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482004919 catalytic loop [active] 269482004920 iron binding site [ion binding]; other site 269482004921 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482004922 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482004923 [2Fe-2S] cluster binding site [ion binding]; other site 269482004924 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 269482004925 putative alpha subunit interface [polypeptide binding]; other site 269482004926 putative active site [active] 269482004927 putative substrate binding site [chemical binding]; other site 269482004928 Fe binding site [ion binding]; other site 269482004929 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482004930 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482004931 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482004932 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 269482004933 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482004934 Cysteine-rich domain; Region: CCG; pfam02754 269482004935 Cysteine-rich domain; Region: CCG; pfam02754 269482004936 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 269482004937 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 269482004938 putative active site [active] 269482004939 putative FMN binding site [chemical binding]; other site 269482004940 putative substrate binding site [chemical binding]; other site 269482004941 putative catalytic residue [active] 269482004942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482004943 Heme NO binding; Region: HNOB; cl15268 269482004944 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 269482004945 active site 269482004946 dimer interface [polypeptide binding]; other site 269482004947 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 269482004948 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482004949 dimer interface [polypeptide binding]; other site 269482004950 active site 269482004951 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482004952 folate binding site [chemical binding]; other site 269482004953 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004954 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482004955 conserved cys residue [active] 269482004956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004957 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482004958 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482004959 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482004960 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 269482004961 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 269482004962 NAD binding site [chemical binding]; other site 269482004963 catalytic Zn binding site [ion binding]; other site 269482004964 structural Zn binding site [ion binding]; other site 269482004965 transcriptional regulator BetI; Validated; Region: PRK00767 269482004966 Helix-turn-helix domains; Region: HTH; cl00088 269482004967 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 269482004968 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004969 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 269482004970 tetrameric interface [polypeptide binding]; other site 269482004971 NAD binding site [chemical binding]; other site 269482004972 catalytic residues [active] 269482004973 choline dehydrogenase; Validated; Region: PRK02106 269482004974 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482004975 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482004976 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482004977 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482004978 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269482004979 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 269482004980 Walker A/P-loop; other site 269482004981 ATP binding site [chemical binding]; other site 269482004982 Q-loop/lid; other site 269482004983 ABC transporter signature motif; other site 269482004984 Walker B; other site 269482004985 D-loop; other site 269482004986 H-loop/switch region; other site 269482004987 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482004988 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 269482004989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482004990 sensory histidine kinase AtoS; Provisional; Region: PRK11360 269482004991 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004992 dimer interface [polypeptide binding]; other site 269482004993 phosphorylation site [posttranslational modification] 269482004994 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004995 ATP binding site [chemical binding]; other site 269482004996 G-X-G motif; other site 269482004997 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004999 active site 269482005000 phosphorylation site [posttranslational modification] 269482005001 intermolecular recognition site; other site 269482005002 dimerization interface [polypeptide binding]; other site 269482005003 YCII-related domain; Region: YCII; cl00999 269482005004 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005005 Putative esterase; Region: Esterase; pfam00756 269482005006 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 269482005007 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 269482005008 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482005009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005010 NMT1-like family; Region: NMT1_2; cl15260 269482005011 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 269482005012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482005013 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 269482005014 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 269482005015 Walker A/P-loop; other site 269482005016 ATP binding site [chemical binding]; other site 269482005017 Q-loop/lid; other site 269482005018 ABC transporter signature motif; other site 269482005019 Walker B; other site 269482005020 D-loop; other site 269482005021 H-loop/switch region; other site 269482005022 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482005023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005024 ABC-ATPase subunit interface; other site 269482005025 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482005026 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482005027 catalytic residue [active] 269482005028 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482005029 active site 269482005030 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 269482005031 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 269482005032 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482005033 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 269482005034 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482005035 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 269482005036 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 269482005037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005038 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482005039 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482005040 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 269482005041 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005042 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005043 conserved cys residue [active] 269482005044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005045 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 269482005046 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482005047 Cupin domain; Region: Cupin_2; cl09118 269482005048 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482005049 Helix-turn-helix domains; Region: HTH; cl00088 269482005050 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482005051 dimerization interface [polypeptide binding]; other site 269482005052 substrate binding pocket [chemical binding]; other site 269482005053 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482005054 homoserine O-succinyltransferase; Region: metA; TIGR01001 269482005055 NMT1-like family; Region: NMT1_2; cl15260 269482005056 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482005057 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005058 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005059 conserved cys residue [active] 269482005060 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 269482005061 metal binding site [ion binding]; metal-binding site 269482005062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005063 dimer interface [polypeptide binding]; other site 269482005064 conserved gate region; other site 269482005065 putative PBP binding loops; other site 269482005066 ABC-ATPase subunit interface; other site 269482005067 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 269482005068 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 269482005069 Walker A/P-loop; other site 269482005070 ATP binding site [chemical binding]; other site 269482005071 Q-loop/lid; other site 269482005072 ABC transporter signature motif; other site 269482005073 Walker B; other site 269482005074 D-loop; other site 269482005075 H-loop/switch region; other site 269482005076 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482005077 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 269482005078 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 269482005079 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 269482005080 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 269482005081 NIPSNAP; Region: NIPSNAP; pfam07978 269482005082 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482005083 Surface antigen; Region: Bac_surface_Ag; cl03097 269482005084 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482005085 Helix-turn-helix domains; Region: HTH; cl00088 269482005086 Integrase core domain; Region: rve; cl01316 269482005087 Haemagglutinin; Region: HIM; pfam05662 269482005088 Haemagglutinin; Region: HIM; pfam05662 269482005089 YadA-like C-terminal region; Region: YadA; pfam03895 269482005090 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482005091 ligand binding site [chemical binding]; other site 269482005092 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005093 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005094 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 269482005095 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005096 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482005097 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482005098 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005099 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 269482005100 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482005101 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 269482005102 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482005103 carboxyltransferase (CT) interaction site; other site 269482005104 biotinylation site [posttranslational modification]; other site 269482005105 enoyl-CoA hydratase; Provisional; Region: PRK05995 269482005106 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482005107 substrate binding site [chemical binding]; other site 269482005108 oxyanion hole (OAH) forming residues; other site 269482005109 trimer interface [polypeptide binding]; other site 269482005110 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 269482005111 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482005112 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482005113 isovaleryl-CoA dehydrogenase; Region: PLN02519 269482005114 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 269482005115 substrate binding site [chemical binding]; other site 269482005116 FAD binding site [chemical binding]; other site 269482005117 catalytic base [active] 269482005118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005119 Helix-turn-helix domains; Region: HTH; cl00088 269482005120 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482005121 Helix-turn-helix domains; Region: HTH; cl00088 269482005122 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482005123 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 269482005124 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 269482005125 alpha subunit interface [polypeptide binding]; other site 269482005126 active site 269482005127 substrate binding site [chemical binding]; other site 269482005128 Fe binding site [ion binding]; other site 269482005129 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482005130 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 269482005131 FMN-binding pocket [chemical binding]; other site 269482005132 flavin binding motif; other site 269482005133 phosphate binding motif [ion binding]; other site 269482005134 beta-alpha-beta structure motif; other site 269482005135 NAD binding pocket [chemical binding]; other site 269482005136 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482005137 catalytic loop [active] 269482005138 iron binding site [ion binding]; other site 269482005139 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 269482005140 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482005141 N-terminal plug; other site 269482005142 ligand-binding site [chemical binding]; other site 269482005143 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482005144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482005145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482005146 Coenzyme A binding pocket [chemical binding]; other site 269482005147 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482005148 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482005149 active site 269482005150 metal binding site [ion binding]; metal-binding site 269482005151 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482005152 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005153 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482005154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482005155 WYL domain; Region: WYL; cl14852 269482005156 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482005157 Transposase domain (DUF772); Region: DUF772; pfam05598 269482005158 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482005159 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482005160 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482005161 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482005162 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482005163 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482005164 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482005165 dimerization interface [polypeptide binding]; other site 269482005166 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482005167 dimer interface [polypeptide binding]; other site 269482005168 phosphorylation site [posttranslational modification] 269482005169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005170 ATP binding site [chemical binding]; other site 269482005171 Mg2+ binding site [ion binding]; other site 269482005172 G-X-G motif; other site 269482005173 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482005174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005175 active site 269482005176 phosphorylation site [posttranslational modification] 269482005177 intermolecular recognition site; other site 269482005178 dimerization interface [polypeptide binding]; other site 269482005179 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482005180 DNA binding site [nucleotide binding] 269482005181 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 269482005182 catalytic residues [active] 269482005183 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482005184 Transglycosylase; Region: Transgly; cl07896 269482005185 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269482005186 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482005187 benzoate transport; Region: 2A0115; TIGR00895 269482005188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005189 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 269482005190 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 269482005191 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482005192 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 269482005193 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482005194 tetrameric interface [polypeptide binding]; other site 269482005195 NAD binding site [chemical binding]; other site 269482005196 catalytic residues [active] 269482005197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005198 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482005199 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 269482005200 Helix-turn-helix domains; Region: HTH; cl00088 269482005201 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482005202 putative active site [active] 269482005203 catalytic site [active] 269482005204 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 269482005205 putative active site [active] 269482005206 catalytic site [active] 269482005207 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 269482005208 Helix-turn-helix domains; Region: HTH; cl00088 269482005209 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482005210 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 269482005211 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 269482005212 homodimer interface [polypeptide binding]; other site 269482005213 NAD binding pocket [chemical binding]; other site 269482005214 ATP binding pocket [chemical binding]; other site 269482005215 Mg binding site [ion binding]; other site 269482005216 active-site loop [active] 269482005217 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482005218 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482005219 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 269482005220 peptidase domain interface [polypeptide binding]; other site 269482005221 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482005222 active site 269482005223 catalytic triad [active] 269482005224 calcium binding site [ion binding]; other site 269482005225 LysE type translocator; Region: LysE; cl00565 269482005226 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482005227 Helix-turn-helix domains; Region: HTH; cl00088 269482005228 AsnC family; Region: AsnC_trans_reg; pfam01037 269482005229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005230 Helix-turn-helix domains; Region: HTH; cl00088 269482005231 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482005232 dimerization interface [polypeptide binding]; other site 269482005233 Arginase family; Region: Arginase; cl00306 269482005234 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 269482005235 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 269482005236 THF binding site; other site 269482005237 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 269482005238 substrate binding site [chemical binding]; other site 269482005239 THF binding site; other site 269482005240 zinc-binding site [ion binding]; other site 269482005241 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 269482005242 Helix-turn-helix domains; Region: HTH; cl00088 269482005243 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 269482005244 putative dimerization interface [polypeptide binding]; other site 269482005245 Phosphate transporter family; Region: PHO4; cl00396 269482005246 Phosphate transporter family; Region: PHO4; cl00396 269482005247 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482005248 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005249 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482005250 putative substrate translocation pore; other site 269482005251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005252 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482005253 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482005254 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 269482005255 NAD(P) binding site [chemical binding]; other site 269482005256 catalytic residues [active] 269482005257 Sulfatase; Region: Sulfatase; cl10460 269482005258 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 269482005259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482005260 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 269482005261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005262 dimer interface [polypeptide binding]; other site 269482005263 conserved gate region; other site 269482005264 putative PBP binding loops; other site 269482005265 ABC-ATPase subunit interface; other site 269482005266 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 269482005267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482005268 Walker A/P-loop; other site 269482005269 ATP binding site [chemical binding]; other site 269482005270 Q-loop/lid; other site 269482005271 ABC transporter signature motif; other site 269482005272 Walker B; other site 269482005273 D-loop; other site 269482005274 H-loop/switch region; other site 269482005275 TOBE domain; Region: TOBE_2; cl01440 269482005276 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005277 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482005278 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482005279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482005280 catalytic residue [active] 269482005281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005282 D-galactonate transporter; Region: 2A0114; TIGR00893 269482005283 putative substrate translocation pore; other site 269482005284 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 269482005285 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482005286 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482005287 shikimate binding site; other site 269482005288 NAD(P) binding site [chemical binding]; other site 269482005289 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 269482005290 active site 269482005291 trimer interface [polypeptide binding]; other site 269482005292 dimer interface [polypeptide binding]; other site 269482005293 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 269482005294 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 269482005295 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482005296 dimer interface [polypeptide binding]; other site 269482005297 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482005298 active site 269482005299 Fe binding site [ion binding]; other site 269482005300 PAS fold; Region: PAS_4; pfam08448 269482005301 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482005302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005303 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482005304 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482005305 dimerization interface [polypeptide binding]; other site 269482005306 ligand binding site [chemical binding]; other site 269482005307 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482005308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005309 putative substrate translocation pore; other site 269482005310 DoxX; Region: DoxX; cl00976 269482005311 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 269482005312 galactarate dehydratase; Region: galactar-dH20; TIGR03248 269482005313 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 269482005314 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 269482005315 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482005316 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 269482005317 putative active site [active] 269482005318 catalytic residue [active] 269482005319 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482005320 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 269482005321 dimer interface [polypeptide binding]; other site 269482005322 NADP binding site [chemical binding]; other site 269482005323 catalytic residues [active] 269482005324 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005325 D-galactonate transporter; Region: 2A0114; TIGR00893 269482005326 putative substrate translocation pore; other site 269482005327 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482005328 non-specific DNA binding site [nucleotide binding]; other site 269482005329 salt bridge; other site 269482005330 sequence-specific DNA binding site [nucleotide binding]; other site 269482005331 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482005332 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 269482005333 Flavin binding site [chemical binding]; other site 269482005334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005335 conserved gate region; other site 269482005336 dimer interface [polypeptide binding]; other site 269482005337 ABC-ATPase subunit interface; other site 269482005338 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 269482005339 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 269482005340 Walker A/P-loop; other site 269482005341 ATP binding site [chemical binding]; other site 269482005342 Q-loop/lid; other site 269482005343 ABC transporter signature motif; other site 269482005344 Walker B; other site 269482005345 D-loop; other site 269482005346 H-loop/switch region; other site 269482005347 NIL domain; Region: NIL; cl09633 269482005348 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482005349 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482005350 active site 269482005351 non-prolyl cis peptide bond; other site 269482005352 NMT1-like family; Region: NMT1_2; cl15260 269482005353 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 269482005354 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482005355 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482005356 dimer interface [polypeptide binding]; other site 269482005357 phosphorylation site [posttranslational modification] 269482005358 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005359 ATP binding site [chemical binding]; other site 269482005360 Mg2+ binding site [ion binding]; other site 269482005361 G-X-G motif; other site 269482005362 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482005363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005364 active site 269482005365 phosphorylation site [posttranslational modification] 269482005366 intermolecular recognition site; other site 269482005367 dimerization interface [polypeptide binding]; other site 269482005368 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482005369 Walker A motif; other site 269482005370 ATP binding site [chemical binding]; other site 269482005371 Walker B motif; other site 269482005372 arginine finger; other site 269482005373 Helix-turn-helix domains; Region: HTH; cl00088 269482005374 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 269482005375 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482005376 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 269482005377 nucleophilic elbow; other site 269482005378 catalytic triad; other site 269482005379 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482005380 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 269482005381 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482005382 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482005383 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482005384 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005385 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482005386 substrate binding pocket [chemical binding]; other site 269482005387 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005389 Helix-turn-helix domains; Region: HTH; cl00088 269482005390 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482005391 putative effector binding pocket; other site 269482005392 putative dimerization interface [polypeptide binding]; other site 269482005393 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482005394 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 269482005395 LysE type translocator; Region: LysE; cl00565 269482005396 selenophosphate synthetase; Provisional; Region: PRK00943 269482005397 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 269482005398 dimerization interface [polypeptide binding]; other site 269482005399 putative ATP binding site [chemical binding]; other site 269482005400 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482005401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482005402 DNA-binding site [nucleotide binding]; DNA binding site 269482005403 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482005404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005405 homodimer interface [polypeptide binding]; other site 269482005406 catalytic residue [active] 269482005407 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 269482005408 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482005409 inhibitor-cofactor binding pocket; inhibition site 269482005410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005411 catalytic residue [active] 269482005412 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482005413 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482005414 tetramerization interface [polypeptide binding]; other site 269482005415 NAD(P) binding site [chemical binding]; other site 269482005416 catalytic residues [active] 269482005417 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482005418 PAS domain; Region: PAS_9; pfam13426 269482005419 putative active site [active] 269482005420 heme pocket [chemical binding]; other site 269482005421 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482005422 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482005423 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005424 dimer interface [polypeptide binding]; other site 269482005425 putative CheW interface [polypeptide binding]; other site 269482005426 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482005427 PAS domain; Region: PAS_9; pfam13426 269482005428 putative active site [active] 269482005429 heme pocket [chemical binding]; other site 269482005430 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482005431 dimerization interface [polypeptide binding]; other site 269482005432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482005433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005434 dimer interface [polypeptide binding]; other site 269482005435 putative CheW interface [polypeptide binding]; other site 269482005436 Protein of unknown function (DUF523); Region: DUF523; cl00733 269482005437 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 269482005438 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482005439 dimer interface [polypeptide binding]; other site 269482005440 active site 269482005441 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 269482005442 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482005443 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005444 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482005445 putative substrate translocation pore; other site 269482005446 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482005447 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482005448 metal binding site [ion binding]; metal-binding site 269482005449 putative dimer interface [polypeptide binding]; other site 269482005450 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482005451 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482005452 short chain dehydrogenase; Provisional; Region: PRK06180 269482005453 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482005454 NADP binding site [chemical binding]; other site 269482005455 active site 269482005456 steroid binding site; other site 269482005457 Helix-turn-helix domains; Region: HTH; cl00088 269482005458 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 269482005459 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 269482005460 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 269482005461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005462 Helix-turn-helix domains; Region: HTH; cl00088 269482005463 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005464 dimerization interface [polypeptide binding]; other site 269482005465 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482005466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005467 putative substrate translocation pore; other site 269482005468 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 269482005469 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482005470 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482005471 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482005472 active site 269482005473 catalytic tetrad [active] 269482005474 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482005475 FMN binding site [chemical binding]; other site 269482005476 active site 269482005477 substrate binding site [chemical binding]; other site 269482005478 catalytic residue [active] 269482005479 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482005480 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 269482005481 Helix-turn-helix domains; Region: HTH; cl00088 269482005482 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 269482005483 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482005484 active site 269482005485 nucleophile elbow; other site 269482005486 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 269482005487 YjcZ-like protein; Region: YjcZ; pfam13990 269482005488 hypothetical protein; Provisional; Region: PRK09866 269482005489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482005490 G1 box; other site 269482005491 GTP/Mg2+ binding site [chemical binding]; other site 269482005492 G2 box; other site 269482005493 Switch I region; other site 269482005494 G3 box; other site 269482005495 Switch II region; other site 269482005496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482005497 G3 box; other site 269482005498 Switch II region; other site 269482005499 GTP/Mg2+ binding site [chemical binding]; other site 269482005500 G4 box; other site 269482005501 G5 box; other site 269482005502 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005503 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482005504 conserved cys residue [active] 269482005505 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482005506 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 269482005507 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 269482005508 conserved cys residue [active] 269482005509 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482005510 classical (c) SDRs; Region: SDR_c; cd05233 269482005511 NAD(P) binding site [chemical binding]; other site 269482005512 active site 269482005513 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 269482005514 Helix-turn-helix domains; Region: HTH; cl00088 269482005515 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482005516 dimerization interface [polypeptide binding]; other site 269482005517 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 269482005518 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482005519 substrate binding pocket [chemical binding]; other site 269482005520 membrane-bound complex binding site; other site 269482005521 hinge residues; other site 269482005522 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 269482005523 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 269482005524 active site 269482005525 Zn binding site [ion binding]; other site 269482005526 NMT1-like family; Region: NMT1_2; cl15260 269482005527 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482005528 trimer interface [polypeptide binding]; other site 269482005529 eyelet of channel; other site 269482005530 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 269482005531 Predicted membrane protein [Function unknown]; Region: COG2860 269482005532 UPF0126 domain; Region: UPF0126; pfam03458 269482005533 UPF0126 domain; Region: UPF0126; pfam03458 269482005534 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482005535 hypothetical protein; Provisional; Region: PRK11171 269482005536 Cupin domain; Region: Cupin_2; cl09118 269482005537 Cupin domain; Region: Cupin_2; cl09118 269482005538 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 269482005539 HIT family signature motif; other site 269482005540 catalytic residue [active] 269482005541 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482005542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482005543 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 269482005544 putative C-terminal domain interface [polypeptide binding]; other site 269482005545 putative GSH binding site (G-site) [chemical binding]; other site 269482005546 putative dimer interface [polypeptide binding]; other site 269482005547 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 269482005548 putative N-terminal domain interface [polypeptide binding]; other site 269482005549 putative dimer interface [polypeptide binding]; other site 269482005550 putative substrate binding pocket (H-site) [chemical binding]; other site 269482005551 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 269482005552 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 269482005553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005554 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 269482005555 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269482005556 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482005557 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 269482005558 putative hydrophobic ligand binding site [chemical binding]; other site 269482005559 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 269482005560 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482005561 putative catalytic residue [active] 269482005562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005563 Helix-turn-helix domains; Region: HTH; cl00088 269482005564 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482005565 putative effector binding pocket; other site 269482005566 dimerization interface [polypeptide binding]; other site 269482005567 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482005568 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 269482005569 active site 269482005570 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482005571 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 269482005572 active site residue [active] 269482005573 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 269482005574 Helix-turn-helix domains; Region: HTH; cl00088 269482005575 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005576 dimerization interface [polypeptide binding]; other site 269482005577 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 269482005578 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 269482005579 tetramer interface [polypeptide binding]; other site 269482005580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005581 catalytic residue [active] 269482005582 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482005583 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482005584 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482005585 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482005586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005587 dimer interface [polypeptide binding]; other site 269482005588 conserved gate region; other site 269482005589 putative PBP binding loops; other site 269482005590 ABC-ATPase subunit interface; other site 269482005591 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 269482005592 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005593 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482005594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482005595 Walker A/P-loop; other site 269482005596 ATP binding site [chemical binding]; other site 269482005597 Q-loop/lid; other site 269482005598 ABC transporter signature motif; other site 269482005599 Walker B; other site 269482005600 D-loop; other site 269482005601 H-loop/switch region; other site 269482005602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005603 dimer interface [polypeptide binding]; other site 269482005604 conserved gate region; other site 269482005605 putative PBP binding loops; other site 269482005606 ABC-ATPase subunit interface; other site 269482005607 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482005608 Helix-turn-helix domains; Region: HTH; cl00088 269482005609 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005610 dimerization interface [polypeptide binding]; other site 269482005611 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 269482005612 Sulfatase; Region: Sulfatase; cl10460 269482005613 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 269482005614 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 269482005615 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005616 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005617 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005618 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005619 Uncharacterized conserved protein [Function unknown]; Region: COG5361 269482005620 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 269482005621 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 269482005622 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005623 metal-binding site [ion binding] 269482005624 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005625 metal-binding site [ion binding] 269482005626 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482005627 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005628 metal-binding site [ion binding] 269482005629 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482005630 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482005631 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482005632 Creatinine amidohydrolase; Region: Creatininase; cl00618 269482005633 MgtC family; Region: MgtC; pfam02308 269482005634 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 269482005635 putative active cleft [active] 269482005636 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 269482005637 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482005638 dimer interface [polypeptide binding]; other site 269482005639 ligand binding site [chemical binding]; other site 269482005640 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005641 dimer interface [polypeptide binding]; other site 269482005642 putative CheW interface [polypeptide binding]; other site 269482005643 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482005644 CoenzymeA binding site [chemical binding]; other site 269482005645 subunit interaction site [polypeptide binding]; other site 269482005646 PHB binding site; other site 269482005647 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482005648 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482005649 DNA binding residues [nucleotide binding] 269482005650 dimerization interface [polypeptide binding]; other site 269482005651 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482005652 DNA binding residues [nucleotide binding] 269482005653 dimerization interface [polypeptide binding]; other site 269482005654 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 269482005655 PrpF protein; Region: PrpF; pfam04303 269482005656 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 269482005657 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 269482005658 substrate binding site [chemical binding]; other site 269482005659 ligand binding site [chemical binding]; other site 269482005660 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 269482005661 substrate binding site [chemical binding]; other site 269482005662 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 269482005663 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 269482005664 dimer interface [polypeptide binding]; other site 269482005665 active site 269482005666 citrylCoA binding site [chemical binding]; other site 269482005667 oxalacetate/citrate binding site [chemical binding]; other site 269482005668 coenzyme A binding site [chemical binding]; other site 269482005669 catalytic triad [active] 269482005670 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 269482005671 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482005672 tetramer interface [polypeptide binding]; other site 269482005673 active site 269482005674 Mg2+/Mn2+ binding site [ion binding]; other site 269482005675 Propionate catabolism activator; Region: PrpR_N; pfam06506 269482005676 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 269482005677 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482005678 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482005679 Walker A motif; other site 269482005680 ATP binding site [chemical binding]; other site 269482005681 Walker B motif; other site 269482005682 arginine finger; other site 269482005683 Helix-turn-helix domains; Region: HTH; cl00088 269482005684 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482005685 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482005686 Helix-turn-helix domains; Region: HTH; cl00088 269482005687 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482005688 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 269482005689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005690 CoA-ligase; Region: Ligase_CoA; cl02894 269482005691 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482005692 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482005693 H-NS histone family; Region: Histone_HNS; pfam00816 269482005694 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482005695 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 269482005696 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482005697 Walker B motif; other site 269482005698 arginine finger; other site 269482005699 Helix-turn-helix domains; Region: HTH; cl00088 269482005700 Citrate transporter; Region: CitMHS; pfam03600 269482005701 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482005702 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482005703 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482005704 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482005705 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482005706 MULE transposase domain; Region: MULE; pfam10551 269482005707 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482005708 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482005709 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482005710 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482005711 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482005712 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 269482005713 active site residue [active] 269482005714 outer membrane porin, OprD family; Region: OprD; pfam03573 269482005715 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 269482005716 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482005717 Walker A/P-loop; other site 269482005718 ATP binding site [chemical binding]; other site 269482005719 Q-loop/lid; other site 269482005720 ABC transporter signature motif; other site 269482005721 Walker B; other site 269482005722 D-loop; other site 269482005723 H-loop/switch region; other site 269482005724 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482005725 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 269482005726 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482005727 Walker A/P-loop; other site 269482005728 ATP binding site [chemical binding]; other site 269482005729 Q-loop/lid; other site 269482005730 ABC transporter signature motif; other site 269482005731 Walker B; other site 269482005732 D-loop; other site 269482005733 H-loop/switch region; other site 269482005734 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482005735 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 269482005736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005737 dimer interface [polypeptide binding]; other site 269482005738 conserved gate region; other site 269482005739 putative PBP binding loops; other site 269482005740 ABC-ATPase subunit interface; other site 269482005741 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 269482005742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005743 ABC-ATPase subunit interface; other site 269482005744 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 269482005745 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 269482005746 peptide binding site [polypeptide binding]; other site 269482005747 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482005748 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482005749 non-specific DNA binding site [nucleotide binding]; other site 269482005750 salt bridge; other site 269482005751 sequence-specific DNA binding site [nucleotide binding]; other site 269482005752 Cupin domain; Region: Cupin_2; cl09118 269482005753 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 269482005754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005755 putative substrate translocation pore; other site 269482005756 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 269482005757 OpgC protein; Region: OpgC_C; cl00792 269482005758 Predicted permeases [General function prediction only]; Region: RarD; COG2962 269482005759 EamA-like transporter family; Region: EamA; cl01037 269482005760 Acylphosphatase; Region: Acylphosphatase; cl00551 269482005761 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 269482005762 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 269482005763 putative NADP binding site [chemical binding]; other site 269482005764 putative substrate binding site [chemical binding]; other site 269482005765 active site 269482005766 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 269482005767 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482005768 active site 269482005769 LytB protein; Region: LYTB; cl00507 269482005770 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 269482005771 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 269482005772 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482005773 FeS/SAM binding site; other site 269482005774 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 269482005775 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 269482005776 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482005777 Haemolysin-III related; Region: HlyIII; cl03831 269482005778 Protein of unknown function (DUF466); Region: DUF466; cl01082 269482005779 carbon starvation protein A; Provisional; Region: PRK15015 269482005780 Carbon starvation protein CstA; Region: CstA; pfam02554 269482005781 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 269482005782 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269482005783 NeuB family; Region: NeuB; cl00496 269482005784 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482005785 hypothetical protein; Provisional; Region: PRK11239 269482005786 Protein of unknown function, DUF480; Region: DUF480; cl01209 269482005787 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482005788 MULE transposase domain; Region: MULE; pfam10551 269482005789 short chain dehydrogenase; Provisional; Region: PRK07023 269482005790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005791 NAD(P) binding site [chemical binding]; other site 269482005792 active site 269482005793 Cupin domain; Region: Cupin_2; cl09118 269482005794 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482005795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482005796 DNA-binding site [nucleotide binding]; DNA binding site 269482005797 UTRA domain; Region: UTRA; cl01230 269482005798 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 269482005799 Helix-turn-helix domains; Region: HTH; cl00088 269482005800 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005801 dimerization interface [polypeptide binding]; other site 269482005802 LysE type translocator; Region: LysE; cl00565 269482005803 benzoate transport; Region: 2A0115; TIGR00895 269482005804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005805 putative substrate translocation pore; other site 269482005806 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482005807 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 269482005808 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005809 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005810 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 269482005811 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 269482005812 tetramer interface [polypeptide binding]; other site 269482005813 active site 269482005814 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482005815 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482005816 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 269482005817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005819 Helix-turn-helix domains; Region: HTH; cl00088 269482005820 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 269482005821 substrate binding pocket [chemical binding]; other site 269482005822 dimerization interface [polypeptide binding]; other site 269482005823 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482005824 GTP cyclohydrolase I; Provisional; Region: PLN03044 269482005825 active site 269482005826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005827 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482005828 NAD(P) binding site [chemical binding]; other site 269482005829 active site 269482005830 serine O-acetyltransferase; Region: cysE; TIGR01172 269482005831 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482005832 trimer interface [polypeptide binding]; other site 269482005833 active site 269482005834 substrate binding site [chemical binding]; other site 269482005835 CoA binding site [chemical binding]; other site 269482005836 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482005837 Ligand Binding Site [chemical binding]; other site 269482005838 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482005839 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482005840 ligand binding site [chemical binding]; other site 269482005841 flexible hinge region; other site 269482005842 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482005843 putative switch regulator; other site 269482005844 non-specific DNA interactions [nucleotide binding]; other site 269482005845 DNA binding site [nucleotide binding] 269482005846 sequence specific DNA binding site [nucleotide binding]; other site 269482005847 putative cAMP binding site [chemical binding]; other site 269482005848 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 269482005849 Helix-turn-helix domains; Region: HTH; cl00088 269482005850 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005851 dimerization interface [polypeptide binding]; other site 269482005852 LysE type translocator; Region: LysE; cl00565 269482005853 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482005854 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482005855 active site 269482005856 catalytic tetrad [active] 269482005857 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 269482005858 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 269482005859 putative molybdopterin cofactor binding site [chemical binding]; other site 269482005860 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 269482005861 putative molybdopterin cofactor binding site; other site 269482005862 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482005863 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482005864 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482005865 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482005866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005867 Helix-turn-helix domains; Region: HTH; cl00088 269482005868 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482005869 putative dimerization interface [polypeptide binding]; other site 269482005870 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482005871 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482005872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005874 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005875 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482005876 malate dehydrogenase; Provisional; Region: PRK05442 269482005877 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 269482005878 NAD(P) binding site [chemical binding]; other site 269482005879 dimer interface [polypeptide binding]; other site 269482005880 malate binding site [chemical binding]; other site 269482005881 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 269482005882 gating phenylalanine in ion channel; other site 269482005883 Fimbrial protein; Region: Fimbrial; cl01416 269482005884 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 269482005885 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 269482005886 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 269482005887 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 269482005888 PapC N-terminal domain; Region: PapC_N; pfam13954 269482005889 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 269482005890 PapC C-terminal domain; Region: PapC_C; pfam13953 269482005891 Fimbrial protein; Region: Fimbrial; cl01416 269482005892 Helix-turn-helix domains; Region: HTH; cl00088 269482005893 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 269482005894 FAD binding pocket [chemical binding]; other site 269482005895 FAD binding motif [chemical binding]; other site 269482005896 phosphate binding motif [ion binding]; other site 269482005897 NAD binding pocket [chemical binding]; other site 269482005898 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 269482005899 active site 269482005900 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 269482005901 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 269482005902 classical (c) SDRs; Region: SDR_c; cd05233 269482005903 NAD(P) binding site [chemical binding]; other site 269482005904 active site 269482005905 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482005906 nucleophile elbow; other site 269482005907 Patatin phospholipase; Region: DUF3734; pfam12536 269482005908 Helix-turn-helix domains; Region: HTH; cl00088 269482005909 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482005910 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482005911 dimerization interface [polypeptide binding]; other site 269482005912 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 269482005913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005914 transcriptional activator TtdR; Provisional; Region: PRK09801 269482005915 Helix-turn-helix domains; Region: HTH; cl00088 269482005916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 269482005917 putative effector binding pocket; other site 269482005918 putative dimerization interface [polypeptide binding]; other site 269482005919 tartrate dehydrogenase; Provisional; Region: PRK08194 269482005920 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 269482005921 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 269482005922 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482005923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005924 Helix-turn-helix domains; Region: HTH; cl00088 269482005925 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 269482005926 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482005927 NAD(P) binding site [chemical binding]; other site 269482005928 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 269482005929 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 269482005930 substrate-cofactor binding pocket; other site 269482005931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005932 catalytic residue [active] 269482005933 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482005934 non-specific DNA binding site [nucleotide binding]; other site 269482005935 salt bridge; other site 269482005936 sequence-specific DNA binding site [nucleotide binding]; other site 269482005937 Cupin domain; Region: Cupin_2; cl09118 269482005938 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482005939 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482005940 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482005941 active site 269482005942 Int/Topo IB signature motif; other site 269482005943 catalytic residues [active] 269482005944 DNA binding site [nucleotide binding] 269482005945 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 269482005946 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482005947 Initiator Replication protein; Region: Rep_3; cl03080 269482005948 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482005949 ParB-like nuclease domain; Region: ParBc; cl02129 269482005950 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482005951 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482005952 P-loop; other site 269482005953 Magnesium ion binding site [ion binding]; other site 269482005954 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 269482005955 ArsC family; Region: ArsC; pfam03960 269482005956 catalytic residues [active] 269482005957 Putative zinc-finger; Region: zf-HC2; cl15806 269482005958 RNA polymerase sigma factor; Provisional; Region: PRK12545 269482005959 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482005960 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482005961 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482005962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482005963 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482005964 dimer interface [polypeptide binding]; other site 269482005965 phosphorylation site [posttranslational modification] 269482005966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005967 ATP binding site [chemical binding]; other site 269482005968 Mg2+ binding site [ion binding]; other site 269482005969 G-X-G motif; other site 269482005970 Response regulator receiver domain; Region: Response_reg; pfam00072 269482005971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005972 active site 269482005973 phosphorylation site [posttranslational modification] 269482005974 intermolecular recognition site; other site 269482005975 dimerization interface [polypeptide binding]; other site 269482005976 Response regulator receiver domain; Region: Response_reg; pfam00072 269482005977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005978 active site 269482005979 phosphorylation site [posttranslational modification] 269482005980 intermolecular recognition site; other site 269482005981 dimerization interface [polypeptide binding]; other site 269482005982 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 269482005983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482005984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482005985 metal binding site [ion binding]; metal-binding site 269482005986 active site 269482005987 I-site; other site 269482005988 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482005989 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482005990 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482005991 active site lid residues [active] 269482005992 substrate binding pocket [chemical binding]; other site 269482005993 catalytic residues [active] 269482005994 substrate-Mg2+ binding site; other site 269482005995 aspartate-rich region 1; other site 269482005996 aspartate-rich region 2; other site 269482005997 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 269482005998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482005999 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 269482006000 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 269482006001 Active site cavity [active] 269482006002 catalytic acid [active] 269482006003 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 269482006004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006005 metal binding site [ion binding]; metal-binding site 269482006006 active site 269482006007 I-site; other site 269482006008 VacJ like lipoprotein; Region: VacJ; cl01073 269482006009 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 269482006010 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 269482006011 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482006012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006013 active site 269482006014 phosphorylation site [posttranslational modification] 269482006015 intermolecular recognition site; other site 269482006016 dimerization interface [polypeptide binding]; other site 269482006017 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006018 DNA binding residues [nucleotide binding] 269482006019 dimerization interface [polypeptide binding]; other site 269482006020 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482006021 Cache domain; Region: Cache_2; cl07034 269482006022 Histidine kinase; Region: HisKA_3; pfam07730 269482006023 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006024 ATP binding site [chemical binding]; other site 269482006025 Mg2+ binding site [ion binding]; other site 269482006026 G-X-G motif; other site 269482006027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006028 metal binding site [ion binding]; metal-binding site 269482006029 active site 269482006030 I-site; other site 269482006031 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482006032 active site 269482006033 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482006034 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 269482006035 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482006036 FMN binding site [chemical binding]; other site 269482006037 substrate binding site [chemical binding]; other site 269482006038 putative catalytic residue [active] 269482006039 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482006040 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482006041 ATP binding site [chemical binding]; other site 269482006042 Mg++ binding site [ion binding]; other site 269482006043 motif III; other site 269482006044 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482006045 nucleotide binding region [chemical binding]; other site 269482006046 ATP-binding site [chemical binding]; other site 269482006047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 269482006048 Transposase; Region: DDE_Tnp_ISL3; pfam01610 269482006049 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482006050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006051 dimer interface [polypeptide binding]; other site 269482006052 conserved gate region; other site 269482006053 putative PBP binding loops; other site 269482006054 ABC-ATPase subunit interface; other site 269482006055 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482006056 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006057 dimer interface [polypeptide binding]; other site 269482006058 conserved gate region; other site 269482006059 putative PBP binding loops; other site 269482006060 ABC-ATPase subunit interface; other site 269482006061 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482006062 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006063 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 269482006064 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 269482006065 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 269482006066 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 269482006067 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 269482006068 Walker A/P-loop; other site 269482006069 ATP binding site [chemical binding]; other site 269482006070 Q-loop/lid; other site 269482006071 ABC transporter signature motif; other site 269482006072 Walker B; other site 269482006073 D-loop; other site 269482006074 H-loop/switch region; other site 269482006075 TOBE domain; Region: TOBE_2; cl01440 269482006076 TOBE domain; Region: TOBE_2; cl01440 269482006077 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482006078 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482006079 DNA binding site [nucleotide binding] 269482006080 domain linker motif; other site 269482006081 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482006082 dimerization interface [polypeptide binding]; other site 269482006083 ligand binding site [chemical binding]; other site 269482006084 OsmC-like protein; Region: OsmC; cl00767 269482006085 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482006086 Helix-turn-helix domains; Region: HTH; cl00088 269482006087 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 269482006088 putative dimerization interface [polypeptide binding]; other site 269482006089 Dehydratase family; Region: ILVD_EDD; cl00340 269482006090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006091 D-galactonate transporter; Region: 2A0114; TIGR00893 269482006092 putative substrate translocation pore; other site 269482006093 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006094 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482006095 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482006096 inhibitor site; inhibition site 269482006097 active site 269482006098 dimer interface [polypeptide binding]; other site 269482006099 catalytic residue [active] 269482006100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006101 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 269482006102 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 269482006103 ligand binding site [chemical binding]; other site 269482006104 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 269482006105 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482006106 Walker A/P-loop; other site 269482006107 ATP binding site [chemical binding]; other site 269482006108 Q-loop/lid; other site 269482006109 ABC transporter signature motif; other site 269482006110 Walker B; other site 269482006111 D-loop; other site 269482006112 H-loop/switch region; other site 269482006113 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482006114 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482006115 TM-ABC transporter signature motif; other site 269482006116 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482006117 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 269482006118 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 269482006119 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482006120 substrate binding site [chemical binding]; other site 269482006121 oxyanion hole (OAH) forming residues; other site 269482006122 trimer interface [polypeptide binding]; other site 269482006123 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 269482006124 NAD(P) binding site [chemical binding]; other site 269482006125 catalytic residues [active] 269482006126 feruloyl-CoA synthase; Reviewed; Region: PRK08180 269482006127 AMP-binding enzyme; Region: AMP-binding; cl15778 269482006128 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482006129 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482006130 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482006131 active site 269482006132 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482006133 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482006134 Helix-turn-helix domains; Region: HTH; cl00088 269482006135 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 269482006136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006137 putative substrate translocation pore; other site 269482006138 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482006139 trimer interface [polypeptide binding]; other site 269482006140 eyelet of channel; other site 269482006141 Tannase and feruloyl esterase; Region: Tannase; pfam07519 269482006142 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 269482006143 active site 269482006144 catalytic site [active] 269482006145 substrate binding site [chemical binding]; other site 269482006146 aminotransferase; Validated; Region: PRK07046 269482006147 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006149 catalytic residue [active] 269482006150 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 269482006151 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 269482006152 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482006153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482006154 Coenzyme A binding pocket [chemical binding]; other site 269482006155 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482006156 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 269482006157 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 269482006158 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 269482006159 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 269482006160 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482006161 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482006162 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 269482006163 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482006164 carboxyltransferase (CT) interaction site; other site 269482006165 biotinylation site [posttranslational modification]; other site 269482006166 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 269482006167 putative active site [active] 269482006168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006169 Helix-turn-helix domains; Region: HTH; cl00088 269482006170 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 269482006171 putative substrate binding pocket [chemical binding]; other site 269482006172 dimerization interface [polypeptide binding]; other site 269482006173 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482006174 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482006175 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 269482006176 active site 269482006177 homodimer interface [polypeptide binding]; other site 269482006178 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 269482006179 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 269482006180 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482006181 active site 269482006182 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482006183 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482006184 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 269482006185 active site 269482006186 dimer interface [polypeptide binding]; other site 269482006187 motif 1; other site 269482006188 motif 2; other site 269482006189 motif 3; other site 269482006190 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 269482006191 anticodon binding site; other site 269482006192 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006193 Chromate transporter; Region: Chromate_transp; pfam02417 269482006194 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482006195 Chromate transporter; Region: Chromate_transp; pfam02417 269482006196 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482006197 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 269482006198 putative metal binding site [ion binding]; other site 269482006199 putative homodimer interface [polypeptide binding]; other site 269482006200 putative homotetramer interface [polypeptide binding]; other site 269482006201 putative homodimer-homodimer interface [polypeptide binding]; other site 269482006202 putative allosteric switch controlling residues; other site 269482006203 Cation efflux family; Region: Cation_efflux; cl00316 269482006204 Cation efflux family; Region: Cation_efflux; cl00316 269482006205 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 269482006206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482006208 putative substrate translocation pore; other site 269482006209 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482006210 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 269482006211 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482006212 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 269482006213 catalytic core [active] 269482006214 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 269482006215 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 269482006216 putative active site [active] 269482006217 putative substrate binding site [chemical binding]; other site 269482006218 ATP binding site [chemical binding]; other site 269482006219 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482006220 classical (c) SDRs; Region: SDR_c; cd05233 269482006221 NAD(P) binding site [chemical binding]; other site 269482006222 active site 269482006223 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482006224 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482006225 active site 269482006226 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 269482006227 Helix-turn-helix domains; Region: HTH; cl00088 269482006228 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482006229 substrate binding pocket [chemical binding]; other site 269482006230 dimerization interface [polypeptide binding]; other site 269482006231 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 269482006232 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006233 Helix-turn-helix domains; Region: HTH; cl00088 269482006234 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482006235 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482006236 putative effector binding pocket; other site 269482006237 dimerization interface [polypeptide binding]; other site 269482006238 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482006239 Helix-turn-helix domains; Region: HTH; cl00088 269482006240 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 269482006241 dimerization interface [polypeptide binding]; other site 269482006242 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482006243 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 269482006244 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482006245 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482006246 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482006247 DNA polymerase II; Reviewed; Region: PRK05762 269482006248 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 269482006249 active site 269482006250 catalytic site [active] 269482006251 substrate binding site [chemical binding]; other site 269482006252 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 269482006253 active site 269482006254 metal-binding site 269482006255 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006256 putative active site [active] 269482006257 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482006258 heme pocket [chemical binding]; other site 269482006259 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006260 dimer interface [polypeptide binding]; other site 269482006261 phosphorylation site [posttranslational modification] 269482006262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006263 ATP binding site [chemical binding]; other site 269482006264 Mg2+ binding site [ion binding]; other site 269482006265 G-X-G motif; other site 269482006266 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006267 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006268 active site 269482006269 phosphorylation site [posttranslational modification] 269482006270 intermolecular recognition site; other site 269482006271 dimerization interface [polypeptide binding]; other site 269482006272 phage resistance protein; Provisional; Region: PRK10551 269482006273 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 269482006274 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482006275 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 269482006276 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269482006277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482006278 Helix-turn-helix domains; Region: HTH; cl00088 269482006279 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482006280 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 269482006281 putative dimerization interface [polypeptide binding]; other site 269482006282 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482006283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006284 NAD(P) binding site [chemical binding]; other site 269482006285 active site 269482006286 benzoate transporter; Region: benE; TIGR00843 269482006287 Benzoate membrane transport protein; Region: BenE; pfam03594 269482006288 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 269482006289 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482006290 putative di-iron ligands [ion binding]; other site 269482006291 NMT1-like family; Region: NMT1_2; cl15260 269482006292 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 269482006293 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482006294 ATP binding site [chemical binding]; other site 269482006295 Mg++ binding site [ion binding]; other site 269482006296 motif III; other site 269482006297 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482006298 nucleotide binding region [chemical binding]; other site 269482006299 ATP-binding site [chemical binding]; other site 269482006300 DbpA RNA binding domain; Region: DbpA; pfam03880 269482006301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482006302 Helix-turn-helix domains; Region: HTH; cl00088 269482006303 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006304 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269482006305 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269482006306 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482006307 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482006308 catalytic residues [active] 269482006309 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482006310 dimerization interface [polypeptide binding]; other site 269482006311 putative DNA binding site [nucleotide binding]; other site 269482006312 putative Zn2+ binding site [ion binding]; other site 269482006313 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006315 catalytic residue [active] 269482006316 Cupin domain; Region: Cupin_2; cl09118 269482006317 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 269482006318 classical (c) SDRs; Region: SDR_c; cd05233 269482006319 NAD(P) binding site [chemical binding]; other site 269482006320 active site 269482006321 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 269482006322 AzlC protein; Region: AzlC; cl00570 269482006323 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482006324 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482006325 putative DNA binding site [nucleotide binding]; other site 269482006326 putative Zn2+ binding site [ion binding]; other site 269482006327 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006328 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 269482006329 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482006330 catalytic residues [active] 269482006331 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 269482006332 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006333 dimer interface [polypeptide binding]; other site 269482006334 phosphorylation site [posttranslational modification] 269482006335 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006336 ATP binding site [chemical binding]; other site 269482006337 Mg2+ binding site [ion binding]; other site 269482006338 G-X-G motif; other site 269482006339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006340 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006341 active site 269482006342 phosphorylation site [posttranslational modification] 269482006343 intermolecular recognition site; other site 269482006344 dimerization interface [polypeptide binding]; other site 269482006345 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482006346 BetR domain; Region: BetR; pfam08667 269482006347 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482006348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006349 active site 269482006350 phosphorylation site [posttranslational modification] 269482006351 intermolecular recognition site; other site 269482006352 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 269482006353 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006354 dimer interface [polypeptide binding]; other site 269482006355 phosphorylation site [posttranslational modification] 269482006356 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006357 ATP binding site [chemical binding]; other site 269482006358 Mg2+ binding site [ion binding]; other site 269482006359 G-X-G motif; other site 269482006360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006361 active site 269482006362 phosphorylation site [posttranslational modification] 269482006363 intermolecular recognition site; other site 269482006364 dimerization interface [polypeptide binding]; other site 269482006365 transcriptional regulator RcsB; Provisional; Region: PRK10840 269482006366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006367 active site 269482006368 phosphorylation site [posttranslational modification] 269482006369 intermolecular recognition site; other site 269482006370 dimerization interface [polypeptide binding]; other site 269482006371 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006372 DNA binding residues [nucleotide binding] 269482006373 dimerization interface [polypeptide binding]; other site 269482006374 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 269482006375 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006376 dimer interface [polypeptide binding]; other site 269482006377 phosphorylation site [posttranslational modification] 269482006378 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006379 ATP binding site [chemical binding]; other site 269482006380 Mg2+ binding site [ion binding]; other site 269482006381 G-X-G motif; other site 269482006382 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006384 active site 269482006385 phosphorylation site [posttranslational modification] 269482006386 intermolecular recognition site; other site 269482006387 dimerization interface [polypeptide binding]; other site 269482006388 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 269482006389 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 269482006390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482006391 catalytic residue [active] 269482006392 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482006393 Helix-turn-helix domains; Region: HTH; cl00088 269482006394 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006395 pyruvate dehydrogenase; Provisional; Region: PRK09124 269482006396 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 269482006397 PYR/PP interface [polypeptide binding]; other site 269482006398 tetramer interface [polypeptide binding]; other site 269482006399 dimer interface [polypeptide binding]; other site 269482006400 TPP binding site [chemical binding]; other site 269482006401 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482006402 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 269482006403 TPP-binding site [chemical binding]; other site 269482006404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006405 Helix-turn-helix domains; Region: HTH; cl00088 269482006406 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006407 dimerization interface [polypeptide binding]; other site 269482006408 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 269482006409 transcriptional regulator EpsA; Region: EpsA; TIGR03020 269482006410 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006411 DNA binding residues [nucleotide binding] 269482006412 dimerization interface [polypeptide binding]; other site 269482006413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006414 D-galactonate transporter; Region: 2A0114; TIGR00893 269482006415 putative substrate translocation pore; other site 269482006416 Helix-turn-helix domains; Region: HTH; cl00088 269482006417 glutathionine S-transferase; Provisional; Region: PRK10542 269482006418 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 269482006419 C-terminal domain interface [polypeptide binding]; other site 269482006420 GSH binding site (G-site) [chemical binding]; other site 269482006421 dimer interface [polypeptide binding]; other site 269482006422 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 269482006423 dimer interface [polypeptide binding]; other site 269482006424 N-terminal domain interface [polypeptide binding]; other site 269482006425 substrate binding pocket (H-site) [chemical binding]; other site 269482006426 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269482006427 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 269482006428 generic binding surface I; other site 269482006429 generic binding surface II; other site 269482006430 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 269482006431 putative active site [active] 269482006432 putative catalytic site [active] 269482006433 putative Mg binding site IVb [ion binding]; other site 269482006434 putative phosphate binding site [ion binding]; other site 269482006435 putative DNA binding site [nucleotide binding]; other site 269482006436 putative Mg binding site IVa [ion binding]; other site 269482006437 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482006438 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482006439 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482006440 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482006441 dimer interface [polypeptide binding]; other site 269482006442 active site 269482006443 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482006444 folate binding site [chemical binding]; other site 269482006445 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006446 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 269482006447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006448 catalytic residue [active] 269482006449 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482006450 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006451 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 269482006452 putative C-terminal domain interface [polypeptide binding]; other site 269482006453 putative GSH binding site (G-site) [chemical binding]; other site 269482006454 putative dimer interface [polypeptide binding]; other site 269482006455 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 269482006456 dimer interface [polypeptide binding]; other site 269482006457 N-terminal domain interface [polypeptide binding]; other site 269482006458 putative substrate binding pocket (H-site) [chemical binding]; other site 269482006459 Helix-turn-helix domains; Region: HTH; cl00088 269482006460 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482006461 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006462 transcriptional regulator; Provisional; Region: PRK10632 269482006463 Helix-turn-helix domains; Region: HTH; cl00088 269482006464 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006465 dimerization interface [polypeptide binding]; other site 269482006466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006467 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006468 active site 269482006469 phosphorylation site [posttranslational modification] 269482006470 intermolecular recognition site; other site 269482006471 dimerization interface [polypeptide binding]; other site 269482006472 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006473 PAS domain; Region: PAS_9; pfam13426 269482006474 putative active site [active] 269482006475 heme pocket [chemical binding]; other site 269482006476 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006477 PAS fold; Region: PAS_3; pfam08447 269482006478 putative active site [active] 269482006479 heme pocket [chemical binding]; other site 269482006480 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006481 dimer interface [polypeptide binding]; other site 269482006482 phosphorylation site [posttranslational modification] 269482006483 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006484 ATP binding site [chemical binding]; other site 269482006485 Mg2+ binding site [ion binding]; other site 269482006486 G-X-G motif; other site 269482006487 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482006488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006489 active site 269482006490 phosphorylation site [posttranslational modification] 269482006491 intermolecular recognition site; other site 269482006492 dimerization interface [polypeptide binding]; other site 269482006493 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006494 DNA binding residues [nucleotide binding] 269482006495 dimerization interface [polypeptide binding]; other site 269482006496 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482006497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006498 putative substrate translocation pore; other site 269482006499 mercuric reductase; Validated; Region: PRK06370 269482006500 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482006501 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482006502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006503 NAD(P) binding site [chemical binding]; other site 269482006504 active site 269482006505 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 269482006506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006507 NAD(P) binding site [chemical binding]; other site 269482006508 active site 269482006509 periplasmic protein; Provisional; Region: PRK10568 269482006510 BON domain; Region: BON; cl02771 269482006511 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482006512 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482006513 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269482006514 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482006515 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006516 putative substrate translocation pore; other site 269482006517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482006518 Helix-turn-helix domains; Region: HTH; cl00088 269482006519 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482006520 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006521 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 269482006522 N-terminal domain interface [polypeptide binding]; other site 269482006523 dimer interface [polypeptide binding]; other site 269482006524 substrate binding pocket (H-site) [chemical binding]; other site 269482006525 DoxX; Region: DoxX; cl00976 269482006526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006527 Helix-turn-helix domains; Region: HTH; cl00088 269482006528 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006529 dimerization interface [polypeptide binding]; other site 269482006530 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 269482006531 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482006532 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482006533 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482006534 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482006535 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482006536 DNA binding residues [nucleotide binding] 269482006537 dimer interface [polypeptide binding]; other site 269482006538 copper binding site [ion binding]; other site 269482006539 Copper resistance protein D; Region: CopD; cl00563 269482006540 Bacterial Ig-like domain; Region: Big_5; cl01012 269482006541 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 269482006542 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482006543 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482006544 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482006545 Repair protein; Region: Repair_PSII; cl01535 269482006546 Repair protein; Region: Repair_PSII; cl01535 269482006547 LemA family; Region: LemA; cl00742 269482006548 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482006549 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482006550 glutaminase active site [active] 269482006551 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482006552 dimer interface [polypeptide binding]; other site 269482006553 active site 269482006554 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482006555 dimer interface [polypeptide binding]; other site 269482006556 active site 269482006557 Helix-turn-helix domains; Region: HTH; cl00088 269482006558 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006559 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 269482006560 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482006561 DNA binding site [nucleotide binding] 269482006562 active site 269482006563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006564 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482006565 putative substrate translocation pore; other site 269482006566 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482006567 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482006568 DNA binding site [nucleotide binding] 269482006569 domain linker motif; other site 269482006570 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482006571 dimerization interface [polypeptide binding]; other site 269482006572 ligand binding site [chemical binding]; other site 269482006573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006574 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482006575 NAD(P) binding site [chemical binding]; other site 269482006576 active site 269482006577 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 269482006578 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482006579 haemagglutination activity domain; Region: Haemagg_act; cl05436 269482006580 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006581 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006582 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006583 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006584 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006585 Transposase domain (DUF772); Region: DUF772; pfam05598 269482006586 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482006587 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482006588 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482006589 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482006590 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482006591 Surface antigen; Region: Bac_surface_Ag; cl03097 269482006592 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482006593 Helix-turn-helix domains; Region: HTH; cl00088 269482006594 Integrase core domain; Region: rve; cl01316 269482006595 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482006596 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 269482006597 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482006598 dimer interface [polypeptide binding]; other site 269482006599 active site 269482006600 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 269482006601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006603 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 269482006604 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482006605 putative di-iron ligands [ion binding]; other site 269482006606 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 269482006607 iron-sulfur cluster [ion binding]; other site 269482006608 [2Fe-2S] cluster binding site [ion binding]; other site 269482006609 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482006610 hydrophobic ligand binding site; other site 269482006611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006612 putative substrate translocation pore; other site 269482006613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006614 acyl-CoA synthetase; Validated; Region: PRK05850 269482006615 AMP-binding enzyme; Region: AMP-binding; cl15778 269482006616 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482006617 Di-iron ligands [ion binding]; other site 269482006618 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482006619 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482006620 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482006621 Di-iron ligands [ion binding]; other site 269482006622 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482006623 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 269482006624 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 269482006625 putative di-iron ligands [ion binding]; other site 269482006626 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482006627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482006628 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482006629 Rubredoxin [Energy production and conversion]; Region: COG1773 269482006630 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482006631 iron binding site [ion binding]; other site 269482006632 putative acyltransferase; Provisional; Region: PRK05790 269482006633 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482006634 dimer interface [polypeptide binding]; other site 269482006635 active site 269482006636 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482006637 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482006638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482006639 homodimer interface [polypeptide binding]; other site 269482006640 catalytic residue [active] 269482006641 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482006642 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 269482006643 Epoxide hydrolase N terminus; Region: EHN; pfam06441 269482006644 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 269482006645 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482006646 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006647 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482006648 LysE type translocator; Region: LysE; cl00565 269482006649 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482006650 trimer interface [polypeptide binding]; other site 269482006651 eyelet of channel; other site 269482006652 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 269482006653 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 269482006654 putative NAD(P) binding site [chemical binding]; other site 269482006655 transcriptional regulator; Provisional; Region: PRK10632 269482006656 Helix-turn-helix domains; Region: HTH; cl00088 269482006657 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 269482006658 putative effector binding pocket; other site 269482006659 putative dimerization interface [polypeptide binding]; other site 269482006660 transcriptional regulator, ArgP family; Region: argP; TIGR03298 269482006661 Helix-turn-helix domains; Region: HTH; cl00088 269482006662 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482006663 dimerization interface [polypeptide binding]; other site 269482006664 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 269482006665 benzoate transport; Region: 2A0115; TIGR00895 269482006666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006667 putative substrate translocation pore; other site 269482006668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006669 5-oxoprolinase; Region: PLN02666 269482006670 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 269482006671 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 269482006672 RNase II stability modulator; Provisional; Region: PRK10060 269482006673 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006674 metal binding site [ion binding]; metal-binding site 269482006675 active site 269482006676 I-site; other site 269482006677 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482006678 enoyl-CoA hydratase; Validated; Region: PRK08788 269482006679 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482006680 substrate binding site [chemical binding]; other site 269482006681 oxyanion hole (OAH) forming residues; other site 269482006682 trimer interface [polypeptide binding]; other site 269482006683 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 269482006684 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482006685 Cupin domain; Region: Cupin_2; cl09118 269482006686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006687 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482006688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006690 putative substrate translocation pore; other site 269482006691 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482006692 Helix-turn-helix domains; Region: HTH; cl00088 269482006693 Helix-turn-helix domains; Region: HTH; cl00088 269482006694 YCII-related domain; Region: YCII; cl00999 269482006695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006696 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 269482006697 putative C-terminal domain interface [polypeptide binding]; other site 269482006698 putative GSH binding site (G-site) [chemical binding]; other site 269482006699 putative dimer interface [polypeptide binding]; other site 269482006700 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 269482006701 dimer interface [polypeptide binding]; other site 269482006702 N-terminal domain interface [polypeptide binding]; other site 269482006703 putative substrate binding pocket (H-site) [chemical binding]; other site 269482006704 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 269482006705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006706 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 269482006707 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 269482006708 dimer interface [polypeptide binding]; other site 269482006709 active site 269482006710 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482006711 substrate binding site [chemical binding]; other site 269482006712 catalytic residue [active] 269482006713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006714 Helix-turn-helix domains; Region: HTH; cl00088 269482006715 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006716 dimerization interface [polypeptide binding]; other site 269482006717 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006718 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 269482006719 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 269482006720 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 269482006721 DNA-K related protein; Region: DUF3731; pfam12531 269482006722 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482006723 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482006724 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482006725 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482006726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006728 Helix-turn-helix domains; Region: HTH; cl00088 269482006729 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006730 dimerization interface [polypeptide binding]; other site 269482006731 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482006732 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 269482006733 putative ligand binding site [chemical binding]; other site 269482006734 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482006735 TM-ABC transporter signature motif; other site 269482006736 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482006737 TM-ABC transporter signature motif; other site 269482006738 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482006739 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482006740 Walker A/P-loop; other site 269482006741 ATP binding site [chemical binding]; other site 269482006742 Q-loop/lid; other site 269482006743 ABC transporter signature motif; other site 269482006744 Walker B; other site 269482006745 D-loop; other site 269482006746 H-loop/switch region; other site 269482006747 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482006748 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482006749 Walker A/P-loop; other site 269482006750 ATP binding site [chemical binding]; other site 269482006751 Q-loop/lid; other site 269482006752 ABC transporter signature motif; other site 269482006753 Walker B; other site 269482006754 D-loop; other site 269482006755 H-loop/switch region; other site 269482006756 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482006757 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482006758 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482006759 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006760 ATP binding site [chemical binding]; other site 269482006761 Mg2+ binding site [ion binding]; other site 269482006762 G-X-G motif; other site 269482006763 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482006764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006765 active site 269482006766 phosphorylation site [posttranslational modification] 269482006767 intermolecular recognition site; other site 269482006768 dimerization interface [polypeptide binding]; other site 269482006769 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482006770 DNA binding site [nucleotide binding] 269482006771 NMT1-like family; Region: NMT1_2; cl15260 269482006772 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482006773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006774 putative substrate translocation pore; other site 269482006775 Histidine kinase; Region: HisKA_3; pfam07730 269482006776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 269482006777 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482006778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006779 active site 269482006780 phosphorylation site [posttranslational modification] 269482006781 intermolecular recognition site; other site 269482006782 dimerization interface [polypeptide binding]; other site 269482006783 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006784 DNA binding residues [nucleotide binding] 269482006785 dimerization interface [polypeptide binding]; other site 269482006786 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482006787 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 269482006788 active site 269482006789 LssY C-terminus; Region: LssY_C; pfam14067 269482006790 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482006791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482006792 Coenzyme A binding pocket [chemical binding]; other site 269482006793 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482006794 MULE transposase domain; Region: MULE; pfam10551 269482006795 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006796 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482006797 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482006798 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 269482006799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 269482006800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006801 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 269482006802 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482006803 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006804 dimer interface [polypeptide binding]; other site 269482006805 conserved gate region; other site 269482006806 putative PBP binding loops; other site 269482006807 ABC-ATPase subunit interface; other site 269482006808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006809 dimer interface [polypeptide binding]; other site 269482006810 conserved gate region; other site 269482006811 putative PBP binding loops; other site 269482006812 ABC-ATPase subunit interface; other site 269482006813 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482006814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482006815 Walker A/P-loop; other site 269482006816 ATP binding site [chemical binding]; other site 269482006817 Q-loop/lid; other site 269482006818 ABC transporter signature motif; other site 269482006819 Walker B; other site 269482006820 D-loop; other site 269482006821 H-loop/switch region; other site 269482006822 TOBE domain; Region: TOBE_2; cl01440 269482006823 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482006824 Helix-turn-helix domains; Region: HTH; cl00088 269482006825 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482006826 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482006827 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482006828 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482006829 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482006830 dimer interface [polypeptide binding]; other site 269482006831 putative CheW interface [polypeptide binding]; other site 269482006832 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482006833 Sel1 repeat; Region: Sel1; cl02723 269482006834 PAAR motif; Region: PAAR_motif; cl15808 269482006835 cyanate transporter; Region: CynX; TIGR00896 269482006836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006837 putative substrate translocation pore; other site 269482006838 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482006839 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 269482006840 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482006841 putative NAD(P) binding site [chemical binding]; other site 269482006842 mercuric reductase; Validated; Region: PRK06370 269482006843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482006844 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482006845 LysE type translocator; Region: LysE; cl00565 269482006846 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 269482006847 Domain of unknown function (DUF802); Region: DUF802; pfam05650 269482006848 Domain of unknown function (DUF802); Region: DUF802; pfam05650 269482006849 hypothetical protein; Provisional; Region: PRK09040 269482006850 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482006851 ligand binding site [chemical binding]; other site 269482006852 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 269482006853 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 269482006854 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482006855 Phospholipid methyltransferase; Region: PEMT; cl00763 269482006856 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482006857 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482006858 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482006859 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482006860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006861 short chain dehydrogenase; Provisional; Region: PRK06181 269482006862 classical (c) SDRs; Region: SDR_c; cd05233 269482006863 NAD(P) binding site [chemical binding]; other site 269482006864 active site 269482006865 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482006866 Helix-turn-helix domains; Region: HTH; cl00088 269482006867 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482006868 putative effector binding pocket; other site 269482006869 dimerization interface [polypeptide binding]; other site 269482006870 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 269482006871 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006872 putative C-terminal domain interface [polypeptide binding]; other site 269482006873 putative GSH binding site (G-site) [chemical binding]; other site 269482006874 putative dimer interface [polypeptide binding]; other site 269482006875 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 269482006876 putative N-terminal domain interface [polypeptide binding]; other site 269482006877 putative dimer interface [polypeptide binding]; other site 269482006878 putative substrate binding pocket (H-site) [chemical binding]; other site 269482006879 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482006880 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482006881 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482006882 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482006883 FAD binding pocket [chemical binding]; other site 269482006884 FAD binding motif [chemical binding]; other site 269482006885 phosphate binding motif [ion binding]; other site 269482006886 beta-alpha-beta structure motif; other site 269482006887 NAD binding pocket [chemical binding]; other site 269482006888 Heme binding pocket [chemical binding]; other site 269482006889 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482006890 catalytic loop [active] 269482006891 iron binding site [ion binding]; other site 269482006892 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 269482006893 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 269482006894 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482006895 N-terminal plug; other site 269482006896 ligand-binding site [chemical binding]; other site 269482006897 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 269482006898 Phosphotransferase enzyme family; Region: APH; pfam01636 269482006899 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482006900 active site 269482006901 ATP binding site [chemical binding]; other site 269482006902 substrate binding site [chemical binding]; other site 269482006903 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 269482006904 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 269482006905 homodimer interface [polypeptide binding]; other site 269482006906 substrate-cofactor binding pocket; other site 269482006907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482006908 catalytic residue [active] 269482006909 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 269482006910 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482006911 S-adenosylmethionine binding site [chemical binding]; other site 269482006912 LysE type translocator; Region: LysE; cl00565 269482006913 Immunity protein Imm5; Region: Imm5; pfam14423 269482006914 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 269482006915 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482006916 Ligand Binding Site [chemical binding]; other site 269482006917 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482006918 Cache domain; Region: Cache_1; pfam02743 269482006919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006920 metal binding site [ion binding]; metal-binding site 269482006921 active site 269482006922 I-site; other site 269482006923 lysine transporter; Provisional; Region: PRK10836 269482006924 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482006925 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482006926 Helix-turn-helix domains; Region: HTH; cl00088 269482006927 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 269482006928 dimerizarion interface [polypeptide binding]; other site 269482006929 CrgA pocket; other site 269482006930 substrate binding pocket [chemical binding]; other site 269482006931 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482006932 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482006933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482006934 DNA-binding site [nucleotide binding]; DNA binding site 269482006935 UTRA domain; Region: UTRA; cl01230 269482006936 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 269482006937 Helix-turn-helix domains; Region: HTH; cl00088 269482006938 putative transposase OrfB; Reviewed; Region: PHA02517 269482006939 Integrase core domain; Region: rve; cl01316 269482006940 Integrase core domain; Region: rve_3; cl15866 269482006941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482006942 HTH-like domain; Region: HTH_21; pfam13276 269482006943 Integrase core domain; Region: rve; cl01316 269482006944 Integrase core domain; Region: rve_3; cl15866 269482006945 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482006946 MULE transposase domain; Region: MULE; pfam10551 269482006947 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482006948 S-adenosylmethionine binding site [chemical binding]; other site 269482006949 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482006950 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482006951 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482006952 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482006953 hypothetical protein; Provisional; Region: PRK09936 269482006954 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 269482006955 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 269482006956 NodB motif; other site 269482006957 putative active site [active] 269482006958 putative catalytic site [active] 269482006959 putative Zn binding site [ion binding]; other site 269482006960 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 269482006961 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482006962 active site 269482006963 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482006964 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482006965 TPR motif; other site 269482006966 binding surface 269482006967 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 269482006968 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 269482006969 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482006970 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482006971 ligand binding site [chemical binding]; other site 269482006972 flexible hinge region; other site 269482006973 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482006974 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 269482006975 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 269482006976 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 269482006977 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482006978 ligand binding site [chemical binding]; other site 269482006979 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482006980 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 269482006981 active site 269482006982 homodimer interface [polypeptide binding]; other site 269482006983 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482006984 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482006985 glutaminase active site [active] 269482006986 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482006987 dimer interface [polypeptide binding]; other site 269482006988 active site 269482006989 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482006990 dimer interface [polypeptide binding]; other site 269482006991 active site 269482006992 NlpC/P60 family; Region: NLPC_P60; cl11438 269482006993 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482006994 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482006995 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006996 putative substrate translocation pore; other site 269482006997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006998 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 269482006999 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482007000 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482007001 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007002 Helix-turn-helix domains; Region: HTH; cl00088 269482007003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007004 Helix-turn-helix domains; Region: HTH; cl00088 269482007005 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482007006 putative effector binding pocket; other site 269482007007 dimerization interface [polypeptide binding]; other site 269482007008 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007009 Helix-turn-helix domains; Region: HTH; cl00088 269482007010 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482007011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007012 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 269482007013 active site 269482007014 FMN binding site [chemical binding]; other site 269482007015 2,4-decadienoyl-CoA binding site; other site 269482007016 catalytic residue [active] 269482007017 4Fe-4S cluster binding site [ion binding]; other site 269482007018 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 269482007019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007020 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482007021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007022 Helix-turn-helix domains; Region: HTH; cl00088 269482007023 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007024 dimerization interface [polypeptide binding]; other site 269482007025 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482007026 Muconolactone delta-isomerase; Region: MIase; cl01992 269482007027 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 269482007028 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 269482007029 dimer interface [polypeptide binding]; other site 269482007030 active site 269482007031 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 269482007032 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 269482007033 octamer interface [polypeptide binding]; other site 269482007034 active site 269482007035 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482007036 Helix-turn-helix domains; Region: HTH; cl00088 269482007037 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 269482007038 dimerizarion interface [polypeptide binding]; other site 269482007039 CrgA pocket; other site 269482007040 substrate binding pocket [chemical binding]; other site 269482007041 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007043 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 269482007044 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 269482007045 putative alpha subunit interface [polypeptide binding]; other site 269482007046 putative active site [active] 269482007047 putative substrate binding site [chemical binding]; other site 269482007048 Fe binding site [ion binding]; other site 269482007049 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 269482007050 inter-subunit interface; other site 269482007051 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 269482007052 [2Fe-2S] cluster binding site [ion binding]; other site 269482007053 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 269482007054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482007055 Protein of unknown function (DUF445); Region: DUF445; pfam04286 269482007056 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482007057 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 269482007058 acetolactate synthase; Reviewed; Region: PRK08322 269482007059 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482007060 PYR/PP interface [polypeptide binding]; other site 269482007061 dimer interface [polypeptide binding]; other site 269482007062 TPP binding site [chemical binding]; other site 269482007063 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482007064 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 269482007065 TPP-binding site [chemical binding]; other site 269482007066 dimer interface [polypeptide binding]; other site 269482007067 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 269482007068 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482007069 NAD(P) binding site [chemical binding]; other site 269482007070 catalytic residues [active] 269482007071 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482007072 Response regulator receiver domain; Region: Response_reg; pfam00072 269482007073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007074 active site 269482007075 phosphorylation site [posttranslational modification] 269482007076 intermolecular recognition site; other site 269482007077 dimerization interface [polypeptide binding]; other site 269482007078 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482007079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482007080 ATP binding site [chemical binding]; other site 269482007081 Mg2+ binding site [ion binding]; other site 269482007082 G-X-G motif; other site 269482007083 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482007084 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482007085 dimerization interface [polypeptide binding]; other site 269482007086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482007087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007088 dimer interface [polypeptide binding]; other site 269482007089 putative CheW interface [polypeptide binding]; other site 269482007090 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482007091 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 269482007092 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482007093 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482007094 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482007095 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 269482007096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482007097 ATP binding site [chemical binding]; other site 269482007098 Mg2+ binding site [ion binding]; other site 269482007099 G-X-G motif; other site 269482007100 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482007101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007102 active site 269482007103 phosphorylation site [posttranslational modification] 269482007104 intermolecular recognition site; other site 269482007105 dimerization interface [polypeptide binding]; other site 269482007106 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 269482007107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007108 active site 269482007109 phosphorylation site [posttranslational modification] 269482007110 intermolecular recognition site; other site 269482007111 dimerization interface [polypeptide binding]; other site 269482007112 CheB methylesterase; Region: CheB_methylest; pfam01339 269482007113 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 269482007114 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 269482007115 putative Cl- selectivity filter; other site 269482007116 putative pore gating glutamate residue; other site 269482007117 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 269482007118 Lumazine binding domain; Region: Lum_binding; pfam00677 269482007119 Lumazine binding domain; Region: Lum_binding; pfam00677 269482007120 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269482007121 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482007122 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269482007123 Walker A/P-loop; other site 269482007124 ATP binding site [chemical binding]; other site 269482007125 Q-loop/lid; other site 269482007126 ABC transporter signature motif; other site 269482007127 Walker B; other site 269482007128 D-loop; other site 269482007129 H-loop/switch region; other site 269482007130 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 269482007131 OsmC-like protein; Region: OsmC; cl00767 269482007132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007133 Helix-turn-helix domains; Region: HTH; cl00088 269482007134 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482007135 substrate binding pocket [chemical binding]; other site 269482007136 dimerization interface [polypeptide binding]; other site 269482007137 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482007138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007139 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482007140 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482007141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007142 short chain dehydrogenase; Validated; Region: PRK07069 269482007143 NAD(P) binding site [chemical binding]; other site 269482007144 active site 269482007145 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 269482007146 Prostaglandin dehydrogenases; Region: PGDH; cd05288 269482007147 NAD(P) binding site [chemical binding]; other site 269482007148 substrate binding site [chemical binding]; other site 269482007149 dimer interface [polypeptide binding]; other site 269482007150 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482007151 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 269482007152 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 269482007153 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 269482007154 YCII-related domain; Region: YCII; cl00999 269482007155 YCII-related domain; Region: YCII; cl00999 269482007156 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 269482007157 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482007158 Uncharacterized protein, contains Trp-Asp (WD) repeat [General function prediction only]; Region: COG5354 269482007159 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007160 Transcriptional activator HlyU; Region: HlyU; cl02273 269482007161 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482007162 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482007163 Substrate binding site; other site 269482007164 Cupin domain; Region: Cupin_2; cl09118 269482007165 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482007166 Bacterial sugar transferase; Region: Bac_transf; cl00939 269482007167 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482007168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007169 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482007170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007171 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482007172 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482007173 active site 269482007174 polysaccharide export protein Wza; Provisional; Region: PRK15078 269482007175 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482007176 SLBB domain; Region: SLBB; pfam10531 269482007177 tyrosine kinase; Provisional; Region: PRK11519 269482007178 Chain length determinant protein; Region: Wzz; cl15801 269482007179 Chain length determinant protein; Region: Wzz; cl15801 269482007180 Chain length determinant protein; Region: Wzz; cl15801 269482007181 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482007182 P-loop; other site 269482007183 Magnesium ion binding site [ion binding]; other site 269482007184 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482007185 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482007186 active site 269482007187 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482007188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482007189 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482007190 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 269482007191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482007192 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482007193 Helix-turn-helix domains; Region: HTH; cl00088 269482007194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007195 putative substrate translocation pore; other site 269482007196 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482007197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007198 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007199 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007200 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269482007201 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 269482007202 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 269482007203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482007204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007205 Walker A motif; other site 269482007206 ATP binding site [chemical binding]; other site 269482007207 Walker B motif; other site 269482007208 arginine finger; other site 269482007209 Helix-turn-helix domains; Region: HTH; cl00088 269482007210 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482007211 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482007212 substrate binding pocket [chemical binding]; other site 269482007213 membrane-bound complex binding site; other site 269482007214 hinge residues; other site 269482007215 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482007216 RES domain; Region: RES; cl02411 269482007217 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482007218 active site 269482007219 metal binding site [ion binding]; metal-binding site 269482007220 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 269482007221 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482007222 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 269482007223 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482007224 active site 269482007225 catalytic site [active] 269482007226 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 269482007227 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 269482007228 active site 269482007229 thiamine phosphate binding site [chemical binding]; other site 269482007230 pyrophosphate binding site [ion binding]; other site 269482007231 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 269482007232 Domain of unknown function DUF21; Region: DUF21; pfam01595 269482007233 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482007234 Transporter associated domain; Region: CorC_HlyC; cl08393 269482007235 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482007236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482007237 dimer interface [polypeptide binding]; other site 269482007238 phosphorylation site [posttranslational modification] 269482007239 Helix-turn-helix domains; Region: HTH; cl00088 269482007240 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007241 dimerization interface [polypeptide binding]; other site 269482007242 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 269482007243 CHAD domain; Region: CHAD; cl10506 269482007244 Helix-turn-helix domains; Region: HTH; cl00088 269482007245 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 269482007246 TOBE domain; Region: TOBE_2; cl01440 269482007247 TOBE domain; Region: TOBE_2; cl01440 269482007248 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482007249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482007250 Walker A/P-loop; other site 269482007251 ATP binding site [chemical binding]; other site 269482007252 Q-loop/lid; other site 269482007253 ABC transporter signature motif; other site 269482007254 Walker B; other site 269482007255 D-loop; other site 269482007256 H-loop/switch region; other site 269482007257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482007258 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 269482007259 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007260 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 269482007261 active site 269482007262 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 269482007263 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482007264 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 269482007265 OsmC-like protein; Region: OsmC; cl00767 269482007266 Helix-turn-helix domains; Region: HTH; cl00088 269482007267 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 269482007268 putative active site [active] 269482007269 putative substrate binding site [chemical binding]; other site 269482007270 ATP binding site [chemical binding]; other site 269482007271 AMP nucleosidase; Provisional; Region: PRK08292 269482007272 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 269482007273 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 269482007274 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482007275 DNA polymerase I; Provisional; Region: PRK05755 269482007276 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 269482007277 active site 269482007278 metal binding site 1 [ion binding]; metal-binding site 269482007279 putative 5' ssDNA interaction site; other site 269482007280 metal binding site 3; metal-binding site 269482007281 metal binding site 2 [ion binding]; metal-binding site 269482007282 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 269482007283 putative DNA binding site [nucleotide binding]; other site 269482007284 putative metal binding site [ion binding]; other site 269482007285 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 269482007286 active site 269482007287 catalytic site [active] 269482007288 substrate binding site [chemical binding]; other site 269482007289 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 269482007290 active site 269482007291 DNA binding site [nucleotide binding] 269482007292 catalytic site [active] 269482007293 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269482007294 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482007295 Dienelactone hydrolase family; Region: DLH; pfam01738 269482007296 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 269482007297 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482007298 active site residue [active] 269482007299 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 269482007300 active site residue [active] 269482007301 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482007302 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482007303 [2Fe-2S] cluster binding site [ion binding]; other site 269482007304 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 269482007305 alpha subunit interface [polypeptide binding]; other site 269482007306 active site 269482007307 substrate binding site [chemical binding]; other site 269482007308 Fe binding site [ion binding]; other site 269482007309 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482007310 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482007311 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 269482007312 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 269482007313 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269482007314 substrate binding pocket [chemical binding]; other site 269482007315 chain length determination region; other site 269482007316 substrate-Mg2+ binding site; other site 269482007317 catalytic residues [active] 269482007318 aspartate-rich region 1; other site 269482007319 active site lid residues [active] 269482007320 aspartate-rich region 2; other site 269482007321 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 269482007322 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 269482007323 TPP-binding site; other site 269482007324 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 269482007325 PYR/PP interface [polypeptide binding]; other site 269482007326 dimer interface [polypeptide binding]; other site 269482007327 TPP binding site [chemical binding]; other site 269482007328 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482007329 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 269482007330 UGMP family protein; Validated; Region: PRK09604 269482007331 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 269482007332 HI0933-like protein; Region: HI0933_like; pfam03486 269482007333 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 269482007334 GatB domain; Region: GatB_Yqey; cl11497 269482007335 DNA primase; Validated; Region: dnaG; PRK05667 269482007336 CHC2 zinc finger; Region: zf-CHC2; cl15369 269482007337 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482007338 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482007339 active site 269482007340 metal binding site [ion binding]; metal-binding site 269482007341 interdomain interaction site; other site 269482007342 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 269482007343 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 269482007344 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 269482007345 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 269482007346 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482007347 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 269482007348 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482007349 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482007350 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482007351 DNA binding residues [nucleotide binding] 269482007352 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482007353 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 269482007354 FMN-binding pocket [chemical binding]; other site 269482007355 flavin binding motif; other site 269482007356 phosphate binding motif [ion binding]; other site 269482007357 beta-alpha-beta structure motif; other site 269482007358 NAD binding pocket [chemical binding]; other site 269482007359 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482007360 catalytic loop [active] 269482007361 iron binding site [ion binding]; other site 269482007362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007363 D-galactonate transporter; Region: 2A0114; TIGR00893 269482007364 putative substrate translocation pore; other site 269482007365 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007366 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007367 Helix-turn-helix domains; Region: HTH; cl00088 269482007368 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 269482007369 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 269482007370 dimerization interface [polypeptide binding]; other site 269482007371 active site 269482007372 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007373 MULE transposase domain; Region: MULE; pfam10551 269482007374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007375 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 269482007376 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 269482007377 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482007378 hydrophobic ligand binding site; other site 269482007379 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 269482007380 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482007381 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482007382 active site 269482007383 catalytic tetrad [active] 269482007384 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482007385 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 269482007386 putative NAD(P) binding site [chemical binding]; other site 269482007387 putative substrate binding site [chemical binding]; other site 269482007388 catalytic Zn binding site [ion binding]; other site 269482007389 structural Zn binding site [ion binding]; other site 269482007390 dimer interface [polypeptide binding]; other site 269482007391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007392 putative substrate translocation pore; other site 269482007393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007394 Helix-turn-helix domains; Region: HTH; cl00088 269482007395 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 269482007396 putative effector binding pocket; other site 269482007397 putative dimerization interface [polypeptide binding]; other site 269482007398 putative transporter; Provisional; Region: PRK12382 269482007399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007400 putative substrate translocation pore; other site 269482007401 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 269482007402 active site 1 [active] 269482007403 dimer interface [polypeptide binding]; other site 269482007404 hexamer interface [polypeptide binding]; other site 269482007405 active site 2 [active] 269482007406 Cupin domain; Region: Cupin_2; cl09118 269482007407 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007408 MULE transposase domain; Region: MULE; pfam10551 269482007409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007410 Helix-turn-helix domains; Region: HTH; cl00088 269482007411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482007412 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482007413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482007414 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482007415 Integrase core domain; Region: rve; cl01316 269482007416 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007417 MULE transposase domain; Region: MULE; pfam10551 269482007418 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007419 putative transposase OrfB; Reviewed; Region: PHA02517 269482007420 HTH-like domain; Region: HTH_21; pfam13276 269482007421 Integrase core domain; Region: rve; cl01316 269482007422 Integrase core domain; Region: rve_3; cl15866 269482007423 Helix-turn-helix domains; Region: HTH; cl00088 269482007424 Helix-turn-helix domains; Region: HTH; cl00088 269482007425 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007426 trimer interface [polypeptide binding]; other site 269482007427 eyelet of channel; other site 269482007428 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482007429 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482007430 Walker A/P-loop; other site 269482007431 ATP binding site [chemical binding]; other site 269482007432 Q-loop/lid; other site 269482007433 ABC transporter signature motif; other site 269482007434 Walker B; other site 269482007435 D-loop; other site 269482007436 H-loop/switch region; other site 269482007437 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482007438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007439 dimer interface [polypeptide binding]; other site 269482007440 conserved gate region; other site 269482007441 putative PBP binding loops; other site 269482007442 ABC-ATPase subunit interface; other site 269482007443 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007444 NMT1-like family; Region: NMT1_2; cl15260 269482007445 Helix-turn-helix domains; Region: HTH; cl00088 269482007446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482007447 Transcription factor Pcc1; Region: Pcc1; cl12080 269482007448 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482007449 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482007450 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482007451 Integrase core domain; Region: rve; cl01316 269482007452 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482007453 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482007454 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 269482007455 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482007456 PYR/PP interface [polypeptide binding]; other site 269482007457 dimer interface [polypeptide binding]; other site 269482007458 TPP binding site [chemical binding]; other site 269482007459 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482007460 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 269482007461 TPP-binding site [chemical binding]; other site 269482007462 dimer interface [polypeptide binding]; other site 269482007463 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482007464 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 269482007465 NAD(P) binding site [chemical binding]; other site 269482007466 catalytic residues [active] 269482007467 catalytic residues [active] 269482007468 NMT1-like family; Region: NMT1_2; cl15260 269482007469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007470 D-galactonate transporter; Region: 2A0114; TIGR00893 269482007471 putative substrate translocation pore; other site 269482007472 Cache domain; Region: Cache_2; cl07034 269482007473 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482007474 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007475 dimer interface [polypeptide binding]; other site 269482007476 putative CheW interface [polypeptide binding]; other site 269482007477 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482007478 DNA binding residues [nucleotide binding] 269482007479 Integrase core domain; Region: rve; cl01316 269482007480 Integrase core domain; Region: rve_3; cl15866 269482007481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007482 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482007483 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482007484 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007485 Walker A motif; other site 269482007486 ATP binding site [chemical binding]; other site 269482007487 Walker B motif; other site 269482007488 arginine finger; other site 269482007489 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482007490 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007491 Walker A motif; other site 269482007492 ATP binding site [chemical binding]; other site 269482007493 Walker B motif; other site 269482007494 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482007495 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482007496 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 269482007497 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482007498 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 269482007499 active site 269482007500 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007501 trimer interface [polypeptide binding]; other site 269482007502 eyelet of channel; other site 269482007503 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482007504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007505 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007506 NHL repeat; Region: NHL; pfam01436 269482007507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007508 Helix-turn-helix domains; Region: HTH; cl00088 269482007509 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482007510 dimerization interface [polypeptide binding]; other site 269482007511 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007512 NHL repeat; Region: NHL; pfam01436 269482007513 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482007514 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482007515 dimerization interface [polypeptide binding]; other site 269482007516 ligand binding site [chemical binding]; other site 269482007517 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482007518 TM-ABC transporter signature motif; other site 269482007519 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482007520 TM-ABC transporter signature motif; other site 269482007521 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482007522 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482007523 Walker A/P-loop; other site 269482007524 ATP binding site [chemical binding]; other site 269482007525 Q-loop/lid; other site 269482007526 ABC transporter signature motif; other site 269482007527 Walker B; other site 269482007528 D-loop; other site 269482007529 H-loop/switch region; other site 269482007530 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482007531 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482007532 Walker A/P-loop; other site 269482007533 ATP binding site [chemical binding]; other site 269482007534 Q-loop/lid; other site 269482007535 ABC transporter signature motif; other site 269482007536 Walker B; other site 269482007537 D-loop; other site 269482007538 H-loop/switch region; other site 269482007539 amidase; Provisional; Region: PRK07056 269482007540 Amidase; Region: Amidase; cl11426 269482007541 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482007542 NHL repeat; Region: NHL; pfam01436 269482007543 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007544 NHL repeat; Region: NHL; pfam01436 269482007545 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482007546 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 269482007547 5' RNA guide strand anchoring site; other site 269482007548 active site 269482007549 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482007550 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482007551 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482007552 Integrase core domain; Region: rve; cl01316 269482007553 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482007554 TniQ; Region: TniQ; pfam06527 269482007555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482007556 AAA domain; Region: AAA_22; pfam13401 269482007557 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 269482007558 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 269482007559 Integrase core domain; Region: rve; cl01316 269482007560 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482007561 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 269482007562 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007563 MULE transposase domain; Region: MULE; pfam10551 269482007564 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482007565 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482007566 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007567 Walker A motif; other site 269482007568 ATP binding site [chemical binding]; other site 269482007569 Walker B motif; other site 269482007570 arginine finger; other site 269482007571 TniQ; Region: TniQ; pfam06527 269482007572 Transposase domain (DUF772); Region: DUF772; pfam05598 269482007573 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482007574 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007575 AAA domain; Region: AAA_22; pfam13401 269482007576 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482007577 Transposase domain (DUF772); Region: DUF772; pfam05598 269482007578 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482007579 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007580 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482007581 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 269482007582 ski2-like helicase; Provisional; Region: PRK02362 269482007583 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482007584 ATP binding site [chemical binding]; other site 269482007585 putative Mg++ binding site [ion binding]; other site 269482007586 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482007587 nucleotide binding region [chemical binding]; other site 269482007588 ATP-binding site [chemical binding]; other site 269482007589 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 269482007590 dimer interface [polypeptide binding]; other site 269482007591 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482007592 dimerization interface [polypeptide binding]; other site 269482007593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007594 dimer interface [polypeptide binding]; other site 269482007595 putative CheW interface [polypeptide binding]; other site 269482007596 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 269482007597 active site 269482007598 nucleophile elbow; other site 269482007599 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 269482007600 putative active site [active] 269482007601 catalytic site [active] 269482007602 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 269482007603 PLD-like domain; Region: PLDc_2; pfam13091 269482007604 putative active site [active] 269482007605 catalytic site [active] 269482007606 putative mechanosensitive channel protein; Provisional; Region: PRK11465 269482007607 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482007608 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 269482007609 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482007610 NAD-dependent deacetylase; Provisional; Region: PRK05333 269482007611 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 269482007612 NAD+ binding site [chemical binding]; other site 269482007613 substrate binding site [chemical binding]; other site 269482007614 Zn binding site [ion binding]; other site 269482007615 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482007616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007617 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 269482007618 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 269482007619 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482007620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482007621 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 269482007622 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482007623 E3 interaction surface; other site 269482007624 lipoyl attachment site [posttranslational modification]; other site 269482007625 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482007626 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482007627 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 269482007628 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482007629 N-terminal plug; other site 269482007630 ligand-binding site [chemical binding]; other site 269482007631 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 269482007632 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482007633 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482007634 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 269482007635 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482007636 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482007637 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 269482007638 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482007639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482007640 DNA-binding site [nucleotide binding]; DNA binding site 269482007641 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482007642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482007643 homodimer interface [polypeptide binding]; other site 269482007644 catalytic residue [active] 269482007645 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482007646 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 269482007647 Walker A/P-loop; other site 269482007648 ATP binding site [chemical binding]; other site 269482007649 Q-loop/lid; other site 269482007650 ABC transporter signature motif; other site 269482007651 Walker B; other site 269482007652 D-loop; other site 269482007653 H-loop/switch region; other site 269482007654 TOBE domain; Region: TOBE_2; cl01440 269482007655 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 269482007656 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007658 dimer interface [polypeptide binding]; other site 269482007659 conserved gate region; other site 269482007660 putative PBP binding loops; other site 269482007661 ABC-ATPase subunit interface; other site 269482007662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007663 dimer interface [polypeptide binding]; other site 269482007664 conserved gate region; other site 269482007665 putative PBP binding loops; other site 269482007666 ABC-ATPase subunit interface; other site 269482007667 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 269482007668 peptidase domain interface [polypeptide binding]; other site 269482007669 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482007670 active site 269482007671 catalytic triad [active] 269482007672 calcium binding site [ion binding]; other site 269482007673 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482007674 dimerization interface [polypeptide binding]; other site 269482007675 putative DNA binding site [nucleotide binding]; other site 269482007676 putative Zn2+ binding site [ion binding]; other site 269482007677 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 269482007678 putative hydrophobic ligand binding site [chemical binding]; other site 269482007679 Protein of unknown function (DUF419); Region: DUF419; cl15265 269482007680 aconitate hydratase; Provisional; Region: acnA; PRK12881 269482007681 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 269482007682 substrate binding site [chemical binding]; other site 269482007683 ligand binding site [chemical binding]; other site 269482007684 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 269482007685 substrate binding site [chemical binding]; other site 269482007686 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 269482007687 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482007688 malate dehydrogenase; Provisional; Region: PRK05442 269482007689 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 269482007690 NAD(P) binding site [chemical binding]; other site 269482007691 dimer interface [polypeptide binding]; other site 269482007692 malate binding site [chemical binding]; other site 269482007693 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482007694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482007695 DNA-binding site [nucleotide binding]; DNA binding site 269482007696 UTRA domain; Region: UTRA; cl01230 269482007697 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 269482007698 Iron-sulfur protein interface; other site 269482007699 proximal quinone binding site [chemical binding]; other site 269482007700 SdhD (CybS) interface [polypeptide binding]; other site 269482007701 proximal heme binding site [chemical binding]; other site 269482007702 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 269482007703 SdhC subunit interface [polypeptide binding]; other site 269482007704 proximal heme binding site [chemical binding]; other site 269482007705 cardiolipin binding site; other site 269482007706 Iron-sulfur protein interface; other site 269482007707 proximal quinone binding site [chemical binding]; other site 269482007708 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 269482007709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007710 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 269482007711 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482007712 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 269482007713 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 269482007714 dimer interface [polypeptide binding]; other site 269482007715 Citrate synthase; Region: Citrate_synt; pfam00285 269482007716 active site 269482007717 citrylCoA binding site [chemical binding]; other site 269482007718 NADH binding [chemical binding]; other site 269482007719 cationic pore residues; other site 269482007720 oxalacetate/citrate binding site [chemical binding]; other site 269482007721 coenzyme A binding site [chemical binding]; other site 269482007722 catalytic triad [active] 269482007723 Cupin domain; Region: Cupin_2; cl09118 269482007724 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482007725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007726 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 269482007727 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482007728 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 269482007729 indole acetimide hydrolase; Validated; Region: PRK07488 269482007730 Amidase; Region: Amidase; cl11426 269482007731 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482007732 Helix-turn-helix domains; Region: HTH; cl00088 269482007733 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482007734 putative effector binding pocket; other site 269482007735 dimerization interface [polypeptide binding]; other site 269482007736 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007737 putative substrate translocation pore; other site 269482007738 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482007739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 269482007740 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 269482007741 Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_AntDO; cd03538 269482007742 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 269482007743 putative alpha subunit interface [polypeptide binding]; other site 269482007744 putative active site [active] 269482007745 putative substrate binding site [chemical binding]; other site 269482007746 Fe binding site [ion binding]; other site 269482007747 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482007748 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 269482007749 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 269482007750 glutathione s-transferase; Provisional; Region: PTZ00057 269482007751 GSH binding site (G-site) [chemical binding]; other site 269482007752 C-terminal domain interface [polypeptide binding]; other site 269482007753 dimer interface [polypeptide binding]; other site 269482007754 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 269482007755 dimer interface [polypeptide binding]; other site 269482007756 N-terminal domain interface [polypeptide binding]; other site 269482007757 substrate binding pocket (H-site) [chemical binding]; other site 269482007758 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 269482007759 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 269482007760 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 269482007761 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482007762 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 269482007763 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482007764 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482007765 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 269482007766 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482007767 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482007768 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482007769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 269482007770 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 269482007771 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482007772 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482007773 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482007774 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482007775 transcriptional regulator ICP4; Provisional; Region: PHA03307 269482007776 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482007777 catalytic residue [active] 269482007778 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482007779 Helix-turn-helix domains; Region: HTH; cl00088 269482007780 Integrase core domain; Region: rve; cl01316 269482007781 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 269482007782 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 269482007783 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482007784 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482007785 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482007786 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482007787 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 269482007788 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 269482007789 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482007790 Helix-turn-helix domains; Region: HTH; cl00088 269482007791 Integrase core domain; Region: rve; cl01316 269482007792 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007793 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482007794 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007795 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482007796 transposase/IS protein; Provisional; Region: PRK09183 269482007797 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007798 Walker A motif; other site 269482007799 ATP binding site [chemical binding]; other site 269482007800 Walker B motif; other site 269482007801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007802 Integrase core domain; Region: rve; cl01316 269482007803 putative transposase OrfB; Reviewed; Region: PHA02517 269482007804 Integrase core domain; Region: rve; cl01316 269482007805 Integrase core domain; Region: rve_3; cl15866 269482007806 Helix-turn-helix domains; Region: HTH; cl00088 269482007807 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482007808 Phospholipase D delta; Region: PLN03008 269482007809 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482007810 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482007811 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 269482007812 putative active site [active] 269482007813 catalytic site [active] 269482007814 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482007815 Sel1 repeat; Region: Sel1; cl02723 269482007816 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 269482007817 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 269482007818 substrate binding site [chemical binding]; other site 269482007819 ligand binding site [chemical binding]; other site 269482007820 Entericidin EcnA/B family; Region: Entericidin; cl02322 269482007821 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 269482007822 substrate binding site [chemical binding]; other site 269482007823 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 269482007824 tartrate dehydrogenase; Provisional; Region: PRK08194 269482007825 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 269482007826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007827 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 269482007828 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 269482007829 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 269482007830 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 269482007831 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 269482007832 dimerization interface 3.5A [polypeptide binding]; other site 269482007833 active site 269482007834 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 269482007835 active site 269482007836 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 269482007837 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482007838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482007839 catalytic residue [active] 269482007840 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482007841 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 269482007842 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 269482007843 substrate binding site [chemical binding]; other site 269482007844 active site 269482007845 catalytic residues [active] 269482007846 heterodimer interface [polypeptide binding]; other site 269482007847 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 269482007848 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482007849 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 269482007850 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482007851 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482007852 Colicin V production protein; Region: Colicin_V; cl00567 269482007853 amidophosphoribosyltransferase; Provisional; Region: PRK09246 269482007854 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 269482007855 active site 269482007856 tetramer interface [polypeptide binding]; other site 269482007857 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482007858 active site 269482007859 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 269482007860 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 269482007861 homodimer interface [polypeptide binding]; other site 269482007862 substrate-cofactor binding pocket; other site 269482007863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482007864 catalytic residue [active] 269482007865 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482007866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007867 NAD(P) binding site [chemical binding]; other site 269482007868 active site 269482007869 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 269482007870 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 269482007871 NADP-binding site; other site 269482007872 homotetramer interface [polypeptide binding]; other site 269482007873 substrate binding site [chemical binding]; other site 269482007874 homodimer interface [polypeptide binding]; other site 269482007875 active site 269482007876 OpgC protein; Region: OpgC_C; cl00792 269482007877 MatE; Region: MatE; cl10513 269482007878 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 269482007879 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482007880 putative ADP-binding pocket [chemical binding]; other site 269482007881 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482007882 OpgC protein; Region: OpgC_C; cl00792 269482007883 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482007884 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482007885 active site 269482007886 tetramer interface; other site 269482007887 OpgC protein; Region: OpgC_C; cl00792 269482007888 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482007889 dimer interface [polypeptide binding]; other site 269482007890 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007891 trimer interface [polypeptide binding]; other site 269482007892 eyelet of channel; other site 269482007893 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 269482007894 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482007895 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482007896 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482007897 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 269482007898 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 269482007899 molybdopterin cofactor binding site; other site 269482007900 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 269482007901 4Fe-4S binding domain; Region: Fer4; cl02805 269482007902 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 269482007903 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482007904 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 269482007905 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 269482007906 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 269482007907 selenocysteine synthase; Provisional; Region: PRK04311 269482007908 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 269482007909 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482007910 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482007911 catalytic residue [active] 269482007912 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 269482007913 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 269482007914 G1 box; other site 269482007915 putative GEF interaction site [polypeptide binding]; other site 269482007916 GTP/Mg2+ binding site [chemical binding]; other site 269482007917 Switch I region; other site 269482007918 G2 box; other site 269482007919 G3 box; other site 269482007920 Switch II region; other site 269482007921 G4 box; other site 269482007922 G5 box; other site 269482007923 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 269482007924 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 269482007925 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 269482007926 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 269482007927 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482007928 Helix-turn-helix domains; Region: HTH; cl00088 269482007929 Integrase core domain; Region: rve; cl01316 269482007930 HNH endonuclease; Region: HNH_3; pfam13392 269482007931 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 269482007932 DNA binding site [nucleotide binding] 269482007933 Protein of unknown function (DUF551); Region: DUF551; pfam04448 269482007934 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482007935 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 269482007936 HNH endonuclease; Region: HNH_3; pfam13392 269482007937 RecT family; Region: RecT; cl04285 269482007938 exonuclease VIII; Reviewed; Region: PRK09709 269482007939 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482007940 Helix-turn-helix domains; Region: HTH; cl00088 269482007941 Integrase core domain; Region: rve; cl01316 269482007942 Predicted transcriptional regulator [Transcription]; Region: COG2944 269482007943 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482007944 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 269482007945 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482007946 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 269482007947 Endodeoxyribonuclease RusA; Region: RusA; cl01885 269482007948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 269482007949 Terminase-like family; Region: Terminase_6; pfam03237 269482007950 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 269482007951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 269482007952 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 269482007953 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 269482007954 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 269482007955 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 269482007956 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 269482007957 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 269482007958 HNH endonuclease; Region: HNH_3; pfam13392 269482007959 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 269482007960 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 269482007961 HNH endonuclease; Region: HNH_3; pfam13392 269482007962 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 269482007963 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 269482007964 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 269482007965 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482007966 Arc-like DNA binding domain; Region: Arc; pfam03869 269482007967 Arc-like DNA binding domain; Region: Arc; pfam03869 269482007968 KilA-N domain; Region: KilA-N; pfam04383 269482007969 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 269482007970 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 269482007971 Baseplate J-like protein; Region: Baseplate_J; cl01294 269482007972 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 269482007973 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482007974 active site 269482007975 catalytic triad [active] 269482007976 oxyanion hole [active] 269482007977 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482007978 catalytic residue [active] 269482007979 major tropism determinant; Region: mtd; PHA00653 269482007980 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482007981 active site 269482007982 catalytic triad [active] 269482007983 oxyanion hole [active] 269482007984 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 269482007985 active site flap/lid [active] 269482007986 nucleophilic elbow; other site 269482007987 catalytic triad [active] 269482007988 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 269482007989 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482007990 substrate binding site [chemical binding]; other site 269482007991 oxyanion hole (OAH) forming residues; other site 269482007992 trimer interface [polypeptide binding]; other site 269482007993 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482007994 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 269482007995 Helix-turn-helix domains; Region: HTH; cl00088 269482007996 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482007997 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482007998 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482007999 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482008000 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482008001 active site 269482008002 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482008003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008004 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482008005 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482008006 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 269482008007 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482008008 Ligand binding site [chemical binding]; other site 269482008009 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482008010 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482008011 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 269482008012 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482008013 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482008014 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482008015 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482008016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008017 transcriptional regulator; Provisional; Region: PRK10632 269482008018 Helix-turn-helix domains; Region: HTH; cl00088 269482008019 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008020 putative effector binding pocket; other site 269482008021 dimerization interface [polypeptide binding]; other site 269482008022 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482008023 Helix-turn-helix domains; Region: HTH; cl00088 269482008024 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 269482008025 putative dimerization interface [polypeptide binding]; other site 269482008026 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 269482008027 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482008028 Helix-turn-helix domains; Region: HTH; cl00088 269482008029 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482008030 dimerization interface [polypeptide binding]; other site 269482008031 substrate binding pocket [chemical binding]; other site 269482008032 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 269482008033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008034 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482008035 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482008036 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482008037 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482008038 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482008039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482008040 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482008041 Helix-turn-helix domains; Region: HTH; cl00088 269482008042 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482008043 PAS domain; Region: PAS_9; pfam13426 269482008044 putative active site [active] 269482008045 heme pocket [chemical binding]; other site 269482008046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008047 metal binding site [ion binding]; metal-binding site 269482008048 active site 269482008049 I-site; other site 269482008050 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482008051 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 269482008052 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482008053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008054 active site 269482008055 phosphorylation site [posttranslational modification] 269482008056 intermolecular recognition site; other site 269482008057 dimerization interface [polypeptide binding]; other site 269482008058 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482008059 DNA binding site [nucleotide binding] 269482008060 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 269482008061 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 269482008062 nudix motif; other site 269482008063 xanthine permease; Region: pbuX; TIGR03173 269482008064 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 269482008065 Helix-turn-helix domains; Region: HTH; cl00088 269482008066 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008067 dimerization interface [polypeptide binding]; other site 269482008068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008069 NAD(P) binding site [chemical binding]; other site 269482008070 active site 269482008071 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269482008072 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 269482008073 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 269482008074 putative active site [active] 269482008075 metal binding site [ion binding]; metal-binding site 269482008076 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 269482008077 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482008078 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482008079 substrate binding pocket [chemical binding]; other site 269482008080 membrane-bound complex binding site; other site 269482008081 Domain of unknown function (DUF427); Region: DUF427; cl00998 269482008082 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482008083 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482008084 NMT1-like family; Region: NMT1_2; cl15260 269482008085 Helix-turn-helix domains; Region: HTH; cl00088 269482008086 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 269482008087 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482008088 dimerization interface [polypeptide binding]; other site 269482008089 substrate binding pocket [chemical binding]; other site 269482008090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008091 putative substrate translocation pore; other site 269482008092 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008094 Helix-turn-helix domains; Region: HTH; cl00088 269482008095 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 269482008096 putative substrate binding pocket [chemical binding]; other site 269482008097 putative dimerization interface [polypeptide binding]; other site 269482008098 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 269482008099 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 269482008100 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 269482008101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008102 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 269482008103 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482008104 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482008105 tetrameric interface [polypeptide binding]; other site 269482008106 NAD binding site [chemical binding]; other site 269482008107 catalytic residues [active] 269482008108 shikimate transporter; Provisional; Region: PRK09952 269482008109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008110 putative substrate translocation pore; other site 269482008111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008112 Helix-turn-helix domains; Region: HTH; cl00088 269482008113 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008114 dimerization interface [polypeptide binding]; other site 269482008115 GAF domain; Region: GAF_2; pfam13185 269482008116 GAF domain; Region: GAF; cl15785 269482008117 PAS domain S-box; Region: sensory_box; TIGR00229 269482008118 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482008119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008120 metal binding site [ion binding]; metal-binding site 269482008121 active site 269482008122 I-site; other site 269482008123 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482008124 Response regulator receiver domain; Region: Response_reg; pfam00072 269482008125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008126 active site 269482008127 phosphorylation site [posttranslational modification] 269482008128 intermolecular recognition site; other site 269482008129 dimerization interface [polypeptide binding]; other site 269482008130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008131 metal binding site [ion binding]; metal-binding site 269482008132 active site 269482008133 I-site; other site 269482008134 Protein of unknown function (DUF969); Region: DUF969; cl01573 269482008135 Protein of unknown function (DUF979); Region: DUF979; cl01572 269482008136 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 269482008137 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 269482008138 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482008139 N-terminal plug; other site 269482008140 ligand-binding site [chemical binding]; other site 269482008141 L-asparaginase II; Region: Asparaginase_II; cl01842 269482008142 Helix-turn-helix domains; Region: HTH; cl00088 269482008143 transcriptional activator TtdR; Provisional; Region: PRK09801 269482008144 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008145 putative effector binding pocket; other site 269482008146 dimerization interface [polypeptide binding]; other site 269482008147 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 269482008148 Aspartase; Region: Aspartase; cd01357 269482008149 active sites [active] 269482008150 tetramer interface [polypeptide binding]; other site 269482008151 L-asparagine permease; Provisional; Region: PRK15049 269482008152 Predicted esterase [General function prediction only]; Region: COG0400 269482008153 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482008154 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008155 Helix-turn-helix domains; Region: HTH; cl00088 269482008156 Integrase core domain; Region: rve; cl01316 269482008157 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482008158 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482008159 dimerization interface [polypeptide binding]; other site 269482008160 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 269482008161 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 269482008162 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 269482008163 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008164 ATP binding site [chemical binding]; other site 269482008165 Mg2+ binding site [ion binding]; other site 269482008166 G-X-G motif; other site 269482008167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008168 putative CheW interface [polypeptide binding]; other site 269482008169 Chemotaxis phosphatase CheX; Region: CheX; cl15816 269482008170 Response regulator receiver domain; Region: Response_reg; pfam00072 269482008171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008172 active site 269482008173 phosphorylation site [posttranslational modification] 269482008174 intermolecular recognition site; other site 269482008175 dimerization interface [polypeptide binding]; other site 269482008176 enoyl-CoA hydratase; Validated; Region: PRK08139 269482008177 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482008178 substrate binding site [chemical binding]; other site 269482008179 oxyanion hole (OAH) forming residues; other site 269482008180 trimer interface [polypeptide binding]; other site 269482008181 alanine racemase; Reviewed; Region: dadX; PRK03646 269482008182 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482008183 active site 269482008184 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482008185 substrate binding site [chemical binding]; other site 269482008186 catalytic residues [active] 269482008187 dimer interface [polypeptide binding]; other site 269482008188 MAPEG family; Region: MAPEG; cl09190 269482008189 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482008190 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482008191 substrate binding pocket [chemical binding]; other site 269482008192 membrane-bound complex binding site; other site 269482008193 hinge residues; other site 269482008194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482008195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482008196 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 269482008197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482008198 Walker A/P-loop; other site 269482008199 ATP binding site [chemical binding]; other site 269482008200 Q-loop/lid; other site 269482008201 ABC transporter signature motif; other site 269482008202 Walker B; other site 269482008203 D-loop; other site 269482008204 H-loop/switch region; other site 269482008205 hypothetical protein; Provisional; Region: PRK07483 269482008206 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482008207 inhibitor-cofactor binding pocket; inhibition site 269482008208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008209 catalytic residue [active] 269482008210 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482008211 Cupin domain; Region: Cupin_2; cl09118 269482008212 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 269482008213 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 269482008214 catalytic residue [active] 269482008215 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 269482008216 catalytic residues [active] 269482008217 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482008218 peroxiredoxin; Region: AhpC; TIGR03137 269482008219 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 269482008220 dimer interface [polypeptide binding]; other site 269482008221 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482008222 catalytic triad [active] 269482008223 peroxidatic and resolving cysteines [active] 269482008224 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482008225 oligomeric interface; other site 269482008226 putative active site [active] 269482008227 homodimer interface [polypeptide binding]; other site 269482008228 Cytochrome c; Region: Cytochrom_C; cl11414 269482008229 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482008230 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482008231 glutaminase active site [active] 269482008232 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482008233 dimer interface [polypeptide binding]; other site 269482008234 active site 269482008235 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482008236 dimer interface [polypeptide binding]; other site 269482008237 active site 269482008238 N-glycosyltransferase; Provisional; Region: PRK11204 269482008239 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 269482008240 DXD motif; other site 269482008241 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 269482008242 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 269482008243 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 269482008244 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 269482008245 cell density-dependent motility repressor; Provisional; Region: PRK10082 269482008246 Helix-turn-helix domains; Region: HTH; cl00088 269482008247 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482008248 dimerization interface [polypeptide binding]; other site 269482008249 Uncharacterized conserved protein [Function unknown]; Region: COG2308 269482008250 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 269482008251 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 269482008252 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 269482008253 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008254 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482008255 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482008256 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008257 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482008258 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 269482008259 Uncharacterized conserved protein [Function unknown]; Region: COG2308 269482008260 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 269482008261 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 269482008262 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008263 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 269482008264 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269482008265 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 269482008266 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482008267 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482008268 Helix-turn-helix domains; Region: HTH; cl00088 269482008269 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482008270 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 269482008271 putative C-terminal domain interface [polypeptide binding]; other site 269482008272 putative GSH binding site (G-site) [chemical binding]; other site 269482008273 putative dimer interface [polypeptide binding]; other site 269482008274 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 269482008275 putative N-terminal domain interface [polypeptide binding]; other site 269482008276 putative dimer interface [polypeptide binding]; other site 269482008277 putative substrate binding pocket (H-site) [chemical binding]; other site 269482008278 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 269482008279 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482008280 P loop; other site 269482008281 Nucleotide binding site [chemical binding]; other site 269482008282 DTAP/Switch II; other site 269482008283 Switch I; other site 269482008284 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482008285 arsenite-activated ATPase ArsA; Region: arsA; TIGR00345 269482008286 DTAP/Switch II; other site 269482008287 Switch I; other site 269482008288 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 269482008289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482008290 Coenzyme A binding pocket [chemical binding]; other site 269482008291 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 269482008292 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 269482008293 Membrane transport protein; Region: Mem_trans; cl09117 269482008294 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482008295 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482008296 active site 269482008297 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482008298 dimerization interface [polypeptide binding]; other site 269482008299 putative DNA binding site [nucleotide binding]; other site 269482008300 putative Zn2+ binding site [ion binding]; other site 269482008301 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269482008302 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482008303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482008304 catalytic residue [active] 269482008305 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482008306 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 269482008307 PYR/PP interface [polypeptide binding]; other site 269482008308 dimer interface [polypeptide binding]; other site 269482008309 TPP binding site [chemical binding]; other site 269482008310 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 269482008311 TPP-binding site; other site 269482008312 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 269482008313 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482008314 tetramer interface [polypeptide binding]; other site 269482008315 active site 269482008316 Mg2+/Mn2+ binding site [ion binding]; other site 269482008317 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 269482008318 active site 269482008319 metal-binding site 269482008320 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 269482008321 active site 269482008322 metal-binding site 269482008323 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 269482008324 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482008325 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269482008326 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 269482008327 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 269482008328 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482008329 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482008330 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 269482008331 DNA binding residues [nucleotide binding] 269482008332 putative dimer interface [polypeptide binding]; other site 269482008333 putative metal binding residues [ion binding]; other site 269482008334 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 269482008335 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 269482008336 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482008337 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482008338 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 269482008339 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482008340 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482008341 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 269482008342 Bacterial SH3 domain; Region: SH3_3; cl02551 269482008343 Dehydratase family; Region: ILVD_EDD; cl00340 269482008344 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 269482008345 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 269482008346 dimer interface [polypeptide binding]; other site 269482008347 NADP binding site [chemical binding]; other site 269482008348 catalytic residues [active] 269482008349 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 269482008350 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 269482008351 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482008352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008353 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482008354 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 269482008355 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482008356 dimerization interface [polypeptide binding]; other site 269482008357 putative DNA binding site [nucleotide binding]; other site 269482008358 putative Zn2+ binding site [ion binding]; other site 269482008359 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 269482008360 Sulphur transport; Region: Sulf_transp; cl01018 269482008361 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482008362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008363 DNA-binding site [nucleotide binding]; DNA binding site 269482008364 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482008365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008366 homodimer interface [polypeptide binding]; other site 269482008367 catalytic residue [active] 269482008368 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 269482008369 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482008370 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482008371 active site 269482008372 metal binding site [ion binding]; metal-binding site 269482008373 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482008374 S-adenosylmethionine binding site [chemical binding]; other site 269482008375 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 269482008376 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 269482008377 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 269482008378 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482008379 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482008380 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482008381 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482008382 putative active site [active] 269482008383 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 269482008384 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 269482008385 catalytic nucleophile [active] 269482008386 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 269482008387 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482008388 Walker A/P-loop; other site 269482008389 ATP binding site [chemical binding]; other site 269482008390 Q-loop/lid; other site 269482008391 ABC transporter signature motif; other site 269482008392 Walker B; other site 269482008393 D-loop; other site 269482008394 H-loop/switch region; other site 269482008395 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482008396 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482008397 Walker A/P-loop; other site 269482008398 ATP binding site [chemical binding]; other site 269482008399 Q-loop/lid; other site 269482008400 ABC transporter signature motif; other site 269482008401 Walker B; other site 269482008402 D-loop; other site 269482008403 H-loop/switch region; other site 269482008404 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482008405 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 269482008406 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482008407 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 269482008408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008409 dimer interface [polypeptide binding]; other site 269482008410 conserved gate region; other site 269482008411 putative PBP binding loops; other site 269482008412 ABC-ATPase subunit interface; other site 269482008413 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 269482008414 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 269482008415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008416 dimer interface [polypeptide binding]; other site 269482008417 conserved gate region; other site 269482008418 putative PBP binding loops; other site 269482008419 ABC-ATPase subunit interface; other site 269482008420 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 269482008421 homodimer interface [polypeptide binding]; other site 269482008422 homotetramer interface [polypeptide binding]; other site 269482008423 active site pocket [active] 269482008424 cleavage site 269482008425 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 269482008426 SxDxEG motif; other site 269482008427 active site 269482008428 metal binding site [ion binding]; metal-binding site 269482008429 homopentamer interface [polypeptide binding]; other site 269482008430 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482008431 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482008432 Cupin domain; Region: Cupin_2; cl09118 269482008433 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482008434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008436 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 269482008437 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 269482008438 ligand binding site; other site 269482008439 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482008440 Helix-turn-helix domains; Region: HTH; cl00088 269482008441 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482008442 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482008443 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008444 putative substrate translocation pore; other site 269482008445 transcriptional regulator; Provisional; Region: PRK10632 269482008446 Helix-turn-helix domains; Region: HTH; cl00088 269482008447 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008448 putative effector binding pocket; other site 269482008449 dimerization interface [polypeptide binding]; other site 269482008450 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482008451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008452 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482008453 OpgC protein; Region: OpgC_C; cl00792 269482008454 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482008455 beta-lactamase TEM; Provisional; Region: PRK15442 269482008456 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482008457 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 269482008458 heterodimer interface [polypeptide binding]; other site 269482008459 active site 269482008460 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 269482008461 heterodimer interface [polypeptide binding]; other site 269482008462 multimer interface [polypeptide binding]; other site 269482008463 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 269482008464 active site 269482008465 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 269482008466 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482008467 non-specific DNA binding site [nucleotide binding]; other site 269482008468 salt bridge; other site 269482008469 sequence-specific DNA binding site [nucleotide binding]; other site 269482008470 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482008471 Helix-turn-helix domains; Region: HTH; cl00088 269482008472 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008473 dimerization interface [polypeptide binding]; other site 269482008474 putative transporter; Provisional; Region: PRK11021 269482008475 putative transporter; Provisional; Region: PRK11021 269482008476 ATP-dependent helicase; Provisional; Region: PRK13767 269482008477 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482008478 ATP binding site [chemical binding]; other site 269482008479 putative Mg++ binding site [ion binding]; other site 269482008480 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482008481 nucleotide binding region [chemical binding]; other site 269482008482 ATP-binding site [chemical binding]; other site 269482008483 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 269482008484 DEAD/H associated; Region: DEAD_assoc; pfam08494 269482008485 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 269482008486 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482008487 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482008488 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 269482008489 Uncharacterized conserved protein [Function unknown]; Region: COG1739 269482008490 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 269482008491 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 269482008492 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482008493 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482008494 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008495 dimer interface [polypeptide binding]; other site 269482008496 putative CheW interface [polypeptide binding]; other site 269482008497 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 269482008498 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482008499 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482008500 shikimate binding site; other site 269482008501 NAD(P) binding site [chemical binding]; other site 269482008502 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482008503 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482008504 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 269482008505 active site 269482008506 catalytic site [active] 269482008507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482008508 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269482008509 active site 269482008510 metal binding site [ion binding]; metal-binding site 269482008511 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 269482008512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008513 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482008514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008515 Helix-turn-helix domains; Region: HTH; cl00088 269482008516 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 269482008517 substrate binding pocket [chemical binding]; other site 269482008518 dimerization interface [polypeptide binding]; other site 269482008519 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482008520 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482008521 Protein export membrane protein; Region: SecD_SecF; cl14618 269482008522 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 269482008523 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482008524 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482008525 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482008526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008527 active site 269482008528 phosphorylation site [posttranslational modification] 269482008529 intermolecular recognition site; other site 269482008530 dimerization interface [polypeptide binding]; other site 269482008531 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482008532 DNA binding site [nucleotide binding] 269482008533 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482008534 dimer interface [polypeptide binding]; other site 269482008535 phosphorylation site [posttranslational modification] 269482008536 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008537 ATP binding site [chemical binding]; other site 269482008538 Mg2+ binding site [ion binding]; other site 269482008539 G-X-G motif; other site 269482008540 CHASE3 domain; Region: CHASE3; cl05000 269482008541 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482008542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482008543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008544 dimer interface [polypeptide binding]; other site 269482008545 putative CheW interface [polypeptide binding]; other site 269482008546 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 269482008547 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 269482008548 Fibronectin type III-like domain; Region: Fn3-like; cl15273 269482008549 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 269482008550 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 269482008551 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482008552 MatE; Region: MatE; cl10513 269482008553 polysaccharide export protein Wza; Provisional; Region: PRK15078 269482008554 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482008555 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 269482008556 Chain length determinant protein; Region: Wzz; cl15801 269482008557 Chain length determinant protein; Region: Wzz; cl15801 269482008558 Chain length determinant protein; Region: Wzz; cl15801 269482008559 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482008560 Nucleotide binding site [chemical binding]; other site 269482008561 P loop; other site 269482008562 DTAP/Switch II; other site 269482008563 Switch I; other site 269482008564 OpgC protein; Region: OpgC_C; cl00792 269482008565 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482008566 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 269482008567 Right handed beta helix region; Region: Beta_helix; pfam13229 269482008568 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482008569 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482008570 Substrate binding site; other site 269482008571 Cupin domain; Region: Cupin_2; cl09118 269482008572 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482008573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482008574 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 269482008575 putative ADP-binding pocket [chemical binding]; other site 269482008576 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482008577 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482008578 Walker A motif; other site 269482008579 ATP binding site [chemical binding]; other site 269482008580 Walker B motif; other site 269482008581 arginine finger; other site 269482008582 Helix-turn-helix domains; Region: HTH; cl00088 269482008583 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 269482008584 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 269482008585 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 269482008586 dimer interface [polypeptide binding]; other site 269482008587 motif 1; other site 269482008588 active site 269482008589 motif 2; other site 269482008590 motif 3; other site 269482008591 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482008592 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482008593 active site 269482008594 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482008595 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482008596 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482008597 ligand binding site [chemical binding]; other site 269482008598 flexible hinge region; other site 269482008599 Helix-turn-helix domains; Region: HTH; cl00088 269482008600 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008601 Helix-turn-helix domains; Region: HTH; cl00088 269482008602 Integrase core domain; Region: rve; cl01316 269482008603 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482008604 Helix-turn-helix domains; Region: HTH; cl00088 269482008605 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482008606 Bacterial sugar transferase; Region: Bac_transf; cl00939 269482008607 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 269482008608 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 269482008609 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 269482008610 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 269482008611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008612 NAD(P) binding pocket [chemical binding]; other site 269482008613 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 269482008614 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 269482008615 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482008616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008617 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482008618 Cytochrome c; Region: Cytochrom_C; cl11414 269482008619 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482008620 Cytochrome c; Region: Cytochrom_C; cl11414 269482008621 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269482008622 putative cation:proton antiport protein; Provisional; Region: PRK10669 269482008623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008624 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 269482008625 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482008626 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482008627 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 269482008628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008629 NAD(P) binding site [chemical binding]; other site 269482008630 active site 269482008631 Helix-turn-helix domains; Region: HTH; cl00088 269482008632 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482008633 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482008634 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 269482008635 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482008636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482008637 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 269482008638 NAD binding site [chemical binding]; other site 269482008639 catalytic residues [active] 269482008640 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 269482008641 putative active site [active] 269482008642 putative metal binding site [ion binding]; other site 269482008643 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 269482008644 putative substrate binding pocket [chemical binding]; other site 269482008645 trimer interface [polypeptide binding]; other site 269482008646 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482008647 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 269482008648 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482008649 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482008650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008651 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482008652 NAD(P) binding site [chemical binding]; other site 269482008653 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482008654 eyelet of channel; other site 269482008655 trimer interface [polypeptide binding]; other site 269482008656 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482008657 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 269482008658 Walker A/P-loop; other site 269482008659 ATP binding site [chemical binding]; other site 269482008660 Q-loop/lid; other site 269482008661 ABC transporter signature motif; other site 269482008662 Walker B; other site 269482008663 D-loop; other site 269482008664 H-loop/switch region; other site 269482008665 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 269482008666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008667 dimer interface [polypeptide binding]; other site 269482008668 conserved gate region; other site 269482008669 ABC-ATPase subunit interface; other site 269482008670 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008671 dimer interface [polypeptide binding]; other site 269482008672 conserved gate region; other site 269482008673 putative PBP binding loops; other site 269482008674 ABC-ATPase subunit interface; other site 269482008675 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008676 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482008677 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482008678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008679 active site 269482008680 phosphorylation site [posttranslational modification] 269482008681 intermolecular recognition site; other site 269482008682 dimerization interface [polypeptide binding]; other site 269482008683 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482008684 DNA binding site [nucleotide binding] 269482008685 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482008686 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482008687 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482008688 dimer interface [polypeptide binding]; other site 269482008689 phosphorylation site [posttranslational modification] 269482008690 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008691 ATP binding site [chemical binding]; other site 269482008692 Mg2+ binding site [ion binding]; other site 269482008693 G-X-G motif; other site 269482008694 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 269482008695 MOSC domain; Region: MOSC; pfam03473 269482008696 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482008697 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482008698 membrane-bound complex binding site; other site 269482008699 Cytochrome c; Region: Cytochrom_C; cl11414 269482008700 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482008701 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482008702 Walker A/P-loop; other site 269482008703 ATP binding site [chemical binding]; other site 269482008704 Q-loop/lid; other site 269482008705 ABC transporter signature motif; other site 269482008706 Walker B; other site 269482008707 D-loop; other site 269482008708 H-loop/switch region; other site 269482008709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008710 dimer interface [polypeptide binding]; other site 269482008711 conserved gate region; other site 269482008712 putative PBP binding loops; other site 269482008713 ABC-ATPase subunit interface; other site 269482008714 NMT1-like family; Region: NMT1_2; cl15260 269482008715 NMT1/THI5 like; Region: NMT1; pfam09084 269482008716 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 269482008717 active site 269482008718 intersubunit interface [polypeptide binding]; other site 269482008719 Zn2+ binding site [ion binding]; other site 269482008720 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 269482008721 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 269482008722 dimer interface [polypeptide binding]; other site 269482008723 active site 269482008724 non-prolyl cis peptide bond; other site 269482008725 insertion regions; other site 269482008726 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482008727 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482008728 Cysteine dioxygenase type I; Region: CDO_I; cl15835 269482008729 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 269482008730 active site residue [active] 269482008731 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 269482008732 active site residue [active] 269482008733 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 269482008734 active site residue [active] 269482008735 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 269482008736 active site residue [active] 269482008737 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482008738 active site lid residues [active] 269482008739 substrate binding pocket [chemical binding]; other site 269482008740 catalytic residues [active] 269482008741 substrate-Mg2+ binding site; other site 269482008742 aspartate-rich region 1; other site 269482008743 aspartate-rich region 2; other site 269482008744 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482008745 trimer interface [polypeptide binding]; other site 269482008746 eyelet of channel; other site 269482008747 Cupin domain; Region: Cupin_2; cl09118 269482008748 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482008749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008750 DNA-binding site [nucleotide binding]; DNA binding site 269482008751 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482008752 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482008753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008754 homodimer interface [polypeptide binding]; other site 269482008755 catalytic residue [active] 269482008756 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482008757 Helix-turn-helix domains; Region: HTH; cl00088 269482008758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008759 dimerization interface [polypeptide binding]; other site 269482008760 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482008761 classical (c) SDRs; Region: SDR_c; cd05233 269482008762 NAD(P) binding site [chemical binding]; other site 269482008763 active site 269482008764 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 269482008765 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 269482008766 substrate binding [chemical binding]; other site 269482008767 active site 269482008768 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 269482008769 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 269482008770 active site 269482008771 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482008772 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482008773 DNA binding site [nucleotide binding] 269482008774 domain linker motif; other site 269482008775 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 269482008776 ligand binding site [chemical binding]; other site 269482008777 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 269482008778 potential catalytic triad [active] 269482008779 conserved cys residue [active] 269482008780 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 269482008781 active site 269482008782 FMN binding site [chemical binding]; other site 269482008783 substrate binding site [chemical binding]; other site 269482008784 homotetramer interface [polypeptide binding]; other site 269482008785 catalytic residue [active] 269482008786 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482008787 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 269482008788 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 269482008789 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 269482008790 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482008791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008792 NAD(P) binding site [chemical binding]; other site 269482008793 active site 269482008794 Cupin domain; Region: Cupin_2; cl09118 269482008795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008796 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482008797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008798 LysE type translocator; Region: LysE; cl00565 269482008799 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482008800 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482008801 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482008802 dimer interface [polypeptide binding]; other site 269482008803 phosphorylation site [posttranslational modification] 269482008804 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008805 ATP binding site [chemical binding]; other site 269482008806 Mg2+ binding site [ion binding]; other site 269482008807 G-X-G motif; other site 269482008808 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 269482008809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008810 active site 269482008811 phosphorylation site [posttranslational modification] 269482008812 intermolecular recognition site; other site 269482008813 dimerization interface [polypeptide binding]; other site 269482008814 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482008815 DNA binding site [nucleotide binding] 269482008816 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482008817 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482008818 ligand binding site [chemical binding]; other site 269482008819 flexible hinge region; other site 269482008820 Helix-turn-helix domains; Region: HTH; cl00088 269482008821 acyl-CoA synthetase; Validated; Region: PRK08162 269482008822 AMP-binding enzyme; Region: AMP-binding; cl15778 269482008823 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482008824 Cache domain; Region: Cache_1; pfam02743 269482008825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482008826 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482008827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008828 dimer interface [polypeptide binding]; other site 269482008829 putative CheW interface [polypeptide binding]; other site 269482008830 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482008831 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269482008832 active site 269482008833 metal binding site [ion binding]; metal-binding site 269482008834 LysE type translocator; Region: LysE; cl00565 269482008835 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482008836 Helix-turn-helix domains; Region: HTH; cl00088 269482008837 AsnC family; Region: AsnC_trans_reg; pfam01037 269482008838 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482008839 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482008840 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482008841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482008842 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482008843 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008844 putative substrate translocation pore; other site 269482008845 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 269482008846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008847 NAD(P) binding site [chemical binding]; other site 269482008848 active site 269482008849 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482008850 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482008851 conserved cys residue [active] 269482008852 Epoxide hydrolase N terminus; Region: EHN; pfam06441 269482008853 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482008854 Cupin domain; Region: Cupin_2; cl09118 269482008855 Helix-turn-helix domains; Region: HTH; cl00088 269482008856 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482008857 dimerization interface [polypeptide binding]; other site 269482008858 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 269482008859 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482008860 inhibitor-cofactor binding pocket; inhibition site 269482008861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008862 catalytic residue [active] 269482008863 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482008864 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482008865 tetrameric interface [polypeptide binding]; other site 269482008866 NAD binding site [chemical binding]; other site 269482008867 catalytic residues [active] 269482008868 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482008869 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482008870 Membrane transport protein; Region: Mem_trans; cl09117 269482008871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008872 Helix-turn-helix domains; Region: HTH; cl00088 269482008873 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 269482008874 putative dimerization interface [polypeptide binding]; other site 269482008875 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482008876 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482008877 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482008878 transcriptional regulator; Provisional; Region: PRK10632 269482008879 Helix-turn-helix domains; Region: HTH; cl00088 269482008880 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008881 putative effector binding pocket; other site 269482008882 dimerization interface [polypeptide binding]; other site 269482008883 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482008884 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482008885 trimer interface [polypeptide binding]; other site 269482008886 eyelet of channel; other site 269482008887 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 269482008888 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482008889 cytosine deaminase; Provisional; Region: PRK09230 269482008890 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 269482008891 active site 269482008892 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 269482008893 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 269482008894 putative ion selectivity filter; other site 269482008895 putative pore gating glutamate residue; other site 269482008896 Methyltransferase domain; Region: Methyltransf_31; pfam13847 269482008897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482008898 S-adenosylmethionine binding site [chemical binding]; other site 269482008899 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 269482008900 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482008901 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 269482008902 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 269482008903 EamA-like transporter family; Region: EamA; cl01037 269482008904 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482008905 Helix-turn-helix domains; Region: HTH; cl00088 269482008906 AsnC family; Region: AsnC_trans_reg; pfam01037 269482008907 aromatic amino acid transporter; Provisional; Region: PRK10238 269482008908 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 269482008909 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482008910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008911 homodimer interface [polypeptide binding]; other site 269482008912 catalytic residue [active] 269482008913 Protein of unknown function, DUF488; Region: DUF488; cl01246 269482008914 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482008915 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482008916 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482008917 ligand binding site [chemical binding]; other site 269482008918 flexible hinge region; other site 269482008919 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482008920 putative switch regulator; other site 269482008921 non-specific DNA interactions [nucleotide binding]; other site 269482008922 DNA binding site [nucleotide binding] 269482008923 sequence specific DNA binding site [nucleotide binding]; other site 269482008924 putative cAMP binding site [chemical binding]; other site 269482008925 Response regulator receiver domain; Region: Response_reg; pfam00072 269482008926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008927 active site 269482008928 phosphorylation site [posttranslational modification] 269482008929 intermolecular recognition site; other site 269482008930 dimerization interface [polypeptide binding]; other site 269482008931 ornithine cyclodeaminase; Validated; Region: PRK07340 269482008932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008933 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482008934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008935 DNA-binding site [nucleotide binding]; DNA binding site 269482008936 FCD domain; Region: FCD; cl11656 269482008937 Transglycosylase; Region: Transgly; cl07896 269482008938 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269482008939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482008940 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482008941 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482008942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482008943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008944 active site 269482008945 phosphorylation site [posttranslational modification] 269482008946 intermolecular recognition site; other site 269482008947 dimerization interface [polypeptide binding]; other site 269482008948 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482008949 DNA binding residues [nucleotide binding] 269482008950 dimerization interface [polypeptide binding]; other site 269482008951 PAS domain S-box; Region: sensory_box; TIGR00229 269482008952 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482008953 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 269482008954 Histidine kinase; Region: HisKA_3; pfam07730 269482008955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008956 ATP binding site [chemical binding]; other site 269482008957 Mg2+ binding site [ion binding]; other site 269482008958 G-X-G motif; other site 269482008959 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482008960 Ligand Binding Site [chemical binding]; other site 269482008961 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 269482008962 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482008963 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482008964 active site residue [active] 269482008965 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482008966 Ligand Binding Site [chemical binding]; other site 269482008967 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482008968 Ligand Binding Site [chemical binding]; other site 269482008969 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 269482008970 Cache domain; Region: Cache_1; pfam02743 269482008971 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482008972 dimerization interface [polypeptide binding]; other site 269482008973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008974 dimer interface [polypeptide binding]; other site 269482008975 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 269482008976 putative CheW interface [polypeptide binding]; other site 269482008977 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 269482008978 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482008979 Walker A motif; other site 269482008980 ATP binding site [chemical binding]; other site 269482008981 Walker B motif; other site 269482008982 arginine finger; other site 269482008983 Helix-turn-helix domains; Region: HTH; cl00088 269482008984 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482008985 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482008986 putative active site [active] 269482008987 heme pocket [chemical binding]; other site 269482008988 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482008989 dimer interface [polypeptide binding]; other site 269482008990 phosphorylation site [posttranslational modification] 269482008991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008992 ATP binding site [chemical binding]; other site 269482008993 Mg2+ binding site [ion binding]; other site 269482008994 G-X-G motif; other site 269482008995 Response regulator receiver domain; Region: Response_reg; pfam00072 269482008996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008997 active site 269482008998 phosphorylation site [posttranslational modification] 269482008999 intermolecular recognition site; other site 269482009000 dimerization interface [polypeptide binding]; other site 269482009001 periplasmic protein; Provisional; Region: PRK10568 269482009002 Domain of unknown function (DUF305); Region: DUF305; cl15795 269482009003 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269482009004 FOG: CBS domain [General function prediction only]; Region: COG0517 269482009005 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482009006 MltA-interacting protein MipA; Region: MipA; cl01504 269482009007 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482009008 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269482009009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482009010 DEAD_2; Region: DEAD_2; pfam06733 269482009011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482009012 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 269482009013 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482009014 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 269482009015 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 269482009016 putative active site [active] 269482009017 shikimate transporter; Provisional; Region: PRK09952 269482009018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009019 putative substrate translocation pore; other site 269482009020 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 269482009021 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482009022 dimer interface [polypeptide binding]; other site 269482009023 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482009024 active site 269482009025 Fe binding site [ion binding]; other site 269482009026 HipA N-terminal domain; Region: Couple_hipA; cl11853 269482009027 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482009028 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482009029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482009030 salt bridge; other site 269482009031 non-specific DNA binding site [nucleotide binding]; other site 269482009032 sequence-specific DNA binding site [nucleotide binding]; other site 269482009033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009034 Helix-turn-helix domains; Region: HTH; cl00088 269482009035 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009036 dimerization interface [polypeptide binding]; other site 269482009037 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 269482009038 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 269482009039 Helix-turn-helix domains; Region: HTH; cl00088 269482009040 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009041 dimerization interface [polypeptide binding]; other site 269482009042 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482009043 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482009044 catalytic loop [active] 269482009045 iron binding site [ion binding]; other site 269482009046 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 269482009047 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482009048 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482009049 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 269482009050 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009052 homodimer interface [polypeptide binding]; other site 269482009053 catalytic residue [active] 269482009054 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482009055 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 269482009056 hinge; other site 269482009057 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 269482009058 active site 269482009059 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 269482009060 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482009061 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 269482009062 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 269482009063 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 269482009064 NAD(P) binding site [chemical binding]; other site 269482009065 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482009066 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482009067 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482009068 tetramerization interface [polypeptide binding]; other site 269482009069 NAD(P) binding site [chemical binding]; other site 269482009070 catalytic residues [active] 269482009071 transcriptional regulator; Provisional; Region: PRK10632 269482009072 Helix-turn-helix domains; Region: HTH; cl00088 269482009073 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009074 putative effector binding pocket; other site 269482009075 dimerization interface [polypeptide binding]; other site 269482009076 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482009077 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482009078 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482009079 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482009080 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482009081 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482009082 non-specific DNA binding site [nucleotide binding]; other site 269482009083 salt bridge; other site 269482009084 sequence-specific DNA binding site [nucleotide binding]; other site 269482009085 Cupin domain; Region: Cupin_2; cl09118 269482009086 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482009087 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 269482009088 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482009089 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 269482009090 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 269482009091 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 269482009092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009093 dimer interface [polypeptide binding]; other site 269482009094 conserved gate region; other site 269482009095 putative PBP binding loops; other site 269482009096 ABC-ATPase subunit interface; other site 269482009097 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 269482009098 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 269482009099 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009100 dimer interface [polypeptide binding]; other site 269482009101 conserved gate region; other site 269482009102 putative PBP binding loops; other site 269482009103 ABC-ATPase subunit interface; other site 269482009104 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 269482009105 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482009106 Walker A/P-loop; other site 269482009107 ATP binding site [chemical binding]; other site 269482009108 Q-loop/lid; other site 269482009109 ABC transporter signature motif; other site 269482009110 Walker B; other site 269482009111 D-loop; other site 269482009112 H-loop/switch region; other site 269482009113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482009114 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482009115 Walker A/P-loop; other site 269482009116 ATP binding site [chemical binding]; other site 269482009117 Q-loop/lid; other site 269482009118 ABC transporter signature motif; other site 269482009119 Walker B; other site 269482009120 D-loop; other site 269482009121 H-loop/switch region; other site 269482009122 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482009123 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482009124 Protein export membrane protein; Region: SecD_SecF; cl14618 269482009125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482009126 Helix-turn-helix domains; Region: HTH; cl00088 269482009127 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 269482009128 Prostaglandin dehydrogenases; Region: PGDH; cd05288 269482009129 NAD(P) binding site [chemical binding]; other site 269482009130 substrate binding site [chemical binding]; other site 269482009131 dimer interface [polypeptide binding]; other site 269482009132 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269482009133 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 269482009134 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482009135 catalytic loop [active] 269482009136 iron binding site [ion binding]; other site 269482009137 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482009138 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009139 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 269482009140 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009141 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009142 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009143 Cytochrome c; Region: Cytochrom_C; cl11414 269482009144 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482009145 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482009146 tetramerization interface [polypeptide binding]; other site 269482009147 NAD(P) binding site [chemical binding]; other site 269482009148 catalytic residues [active] 269482009149 LysE type translocator; Region: LysE; cl00565 269482009150 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009152 DNA-binding site [nucleotide binding]; DNA binding site 269482009153 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009155 homodimer interface [polypeptide binding]; other site 269482009156 catalytic residue [active] 269482009157 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482009158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482009159 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482009160 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482009161 Walker A/P-loop; other site 269482009162 ATP binding site [chemical binding]; other site 269482009163 Q-loop/lid; other site 269482009164 ABC transporter signature motif; other site 269482009165 Walker B; other site 269482009166 D-loop; other site 269482009167 H-loop/switch region; other site 269482009168 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009169 NMT1-like family; Region: NMT1_2; cl15260 269482009170 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 269482009171 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 269482009172 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 269482009173 DNA-binding site [nucleotide binding]; DNA binding site 269482009174 RNA-binding motif; other site 269482009175 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482009176 NAD(P) binding site [chemical binding]; other site 269482009177 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009178 trimer interface [polypeptide binding]; other site 269482009179 eyelet of channel; other site 269482009180 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482009181 PAS fold; Region: PAS_7; pfam12860 269482009182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482009183 metal binding site [ion binding]; metal-binding site 269482009184 active site 269482009185 I-site; other site 269482009186 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 269482009187 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 269482009188 putative active site [active] 269482009189 Zn binding site [ion binding]; other site 269482009190 Predicted acetyltransferase [General function prediction only]; Region: COG3393 269482009191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482009192 Coenzyme A binding pocket [chemical binding]; other site 269482009193 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009194 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482009195 substrate binding pocket [chemical binding]; other site 269482009196 membrane-bound complex binding site; other site 269482009197 hinge residues; other site 269482009198 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482009199 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 269482009200 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482009201 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482009202 active site 269482009203 non-prolyl cis peptide bond; other site 269482009204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482009205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009206 conserved gate region; other site 269482009207 dimer interface [polypeptide binding]; other site 269482009208 putative PBP binding loops; other site 269482009209 ABC-ATPase subunit interface; other site 269482009210 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482009211 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482009212 Walker A/P-loop; other site 269482009213 ATP binding site [chemical binding]; other site 269482009214 Q-loop/lid; other site 269482009215 ABC transporter signature motif; other site 269482009216 Walker B; other site 269482009217 D-loop; other site 269482009218 H-loop/switch region; other site 269482009219 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482009220 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009221 substrate binding pocket [chemical binding]; other site 269482009222 membrane-bound complex binding site; other site 269482009223 hinge residues; other site 269482009224 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009225 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009226 substrate binding pocket [chemical binding]; other site 269482009227 membrane-bound complex binding site; other site 269482009228 hinge residues; other site 269482009229 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 269482009230 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482009231 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009232 Helix-turn-helix domains; Region: HTH; cl00088 269482009233 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 269482009234 BNR repeat-like domain; Region: BNR_2; pfam13088 269482009235 Asp-box motif; other site 269482009236 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482009237 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 269482009238 NAD binding site [chemical binding]; other site 269482009239 substrate binding site [chemical binding]; other site 269482009240 catalytic Zn binding site [ion binding]; other site 269482009241 tetramer interface [polypeptide binding]; other site 269482009242 structural Zn binding site [ion binding]; other site 269482009243 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 269482009244 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482009245 N-terminal plug; other site 269482009246 ligand-binding site [chemical binding]; other site 269482009247 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482009248 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482009249 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482009250 active site 269482009251 homotetramer interface [polypeptide binding]; other site 269482009252 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482009253 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 269482009254 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 269482009255 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 269482009256 active site 269482009257 substrate-binding site [chemical binding]; other site 269482009258 metal-binding site [ion binding] 269482009259 GTP binding site [chemical binding]; other site 269482009260 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482009261 tetramer interface [polypeptide binding]; other site 269482009262 active site 269482009263 Mg2+/Mn2+ binding site [ion binding]; other site 269482009264 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 269482009265 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 269482009266 putative deacylase active site [active] 269482009267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 269482009268 YheO-like PAS domain; Region: PAS_6; pfam08348 269482009269 Helix-turn-helix domains; Region: HTH; cl00088 269482009270 serine racemase; Region: PLN02970 269482009271 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482009272 tetramer interface [polypeptide binding]; other site 269482009273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009274 catalytic residue [active] 269482009275 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 269482009276 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482009277 N-terminal plug; other site 269482009278 ligand-binding site [chemical binding]; other site 269482009279 LysE type translocator; Region: LysE; cl00565 269482009280 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 269482009281 Helix-turn-helix domains; Region: HTH; cl00088 269482009282 AsnC family; Region: AsnC_trans_reg; pfam01037 269482009283 Winged helix-turn helix; Region: HTH_29; pfam13551 269482009284 Helix-turn-helix domains; Region: HTH; cl00088 269482009285 Helix-turn-helix domains; Region: HTH; cl00088 269482009286 Integrase core domain; Region: rve; cl01316 269482009287 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482009288 MULE transposase domain; Region: MULE; pfam10551 269482009289 Transposase domain (DUF772); Region: DUF772; pfam05598 269482009290 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482009291 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482009292 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482009293 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482009294 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482009295 Helix-turn-helix domains; Region: HTH; cl00088 269482009296 Integrase core domain; Region: rve; cl01316 269482009297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482009298 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482009299 H+ Antiporter protein; Region: 2A0121; TIGR00900 269482009300 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009301 putative substrate translocation pore; other site 269482009302 Winged helix-turn helix; Region: HTH_29; pfam13551 269482009303 Helix-turn-helix domains; Region: HTH; cl00088 269482009304 Helix-turn-helix domains; Region: HTH; cl00088 269482009305 Integrase core domain; Region: rve; cl01316 269482009306 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 269482009307 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 269482009308 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 269482009309 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482009310 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009311 putative substrate translocation pore; other site 269482009312 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 269482009313 rRNA binding site [nucleotide binding]; other site 269482009314 predicted 30S ribosome binding site; other site 269482009315 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 269482009316 DNA-binding site [nucleotide binding]; DNA binding site 269482009317 RNA-binding motif; other site 269482009318 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 269482009319 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 269482009320 putative transporter; Provisional; Region: PRK10504 269482009321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009322 putative substrate translocation pore; other site 269482009323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009324 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482009325 active site 269482009326 metal binding site [ion binding]; metal-binding site 269482009327 LysE type translocator; Region: LysE; cl00565 269482009328 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482009329 Helix-turn-helix domains; Region: HTH; cl00088 269482009330 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482009331 dimerization interface [polypeptide binding]; other site 269482009332 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482009333 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482009334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482009335 metal binding site [ion binding]; metal-binding site 269482009336 active site 269482009337 I-site; other site 269482009338 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482009339 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009340 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009342 DNA-binding site [nucleotide binding]; DNA binding site 269482009343 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009345 homodimer interface [polypeptide binding]; other site 269482009346 catalytic residue [active] 269482009347 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 269482009348 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 269482009349 Predicted integral membrane protein [Function unknown]; Region: COG0392 269482009350 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 269482009351 Uncharacterized conserved protein [Function unknown]; Region: COG2898 269482009352 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 269482009353 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 269482009354 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 269482009355 [4Fe-4S] binding site [ion binding]; other site 269482009356 molybdopterin cofactor binding site; other site 269482009357 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 269482009358 molybdopterin cofactor binding site; other site 269482009359 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 269482009360 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482009361 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 269482009362 FAD binding pocket [chemical binding]; other site 269482009363 FAD binding motif [chemical binding]; other site 269482009364 catalytic residues [active] 269482009365 NAD binding pocket [chemical binding]; other site 269482009366 phosphate binding motif [ion binding]; other site 269482009367 beta-alpha-beta structure motif; other site 269482009368 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 269482009369 nitrite reductase subunit NirD; Provisional; Region: PRK14989 269482009370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482009371 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 269482009372 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 269482009373 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482009374 nitrate transmembrane transporter; Provisional; Region: PLN00028 269482009375 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482009376 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 269482009377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009378 active site 269482009379 phosphorylation site [posttranslational modification] 269482009380 intermolecular recognition site; other site 269482009381 dimerization interface [polypeptide binding]; other site 269482009382 ANTAR domain; Region: ANTAR; cl04297 269482009383 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009384 NMT1-like family; Region: NMT1_2; cl15260 269482009385 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 269482009386 putative uracil binding site [chemical binding]; other site 269482009387 putative active site [active] 269482009388 Flagellin N-methylase; Region: FliB; cl00497 269482009389 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 269482009390 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009391 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482009392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009393 putative substrate translocation pore; other site 269482009394 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482009395 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482009396 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009397 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009398 protein binding site [polypeptide binding]; other site 269482009399 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482009400 Helix-turn-helix domains; Region: HTH; cl00088 269482009401 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 269482009402 putative dimerization interface [polypeptide binding]; other site 269482009403 putative substrate binding pocket [chemical binding]; other site 269482009404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009405 putative substrate translocation pore; other site 269482009406 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482009407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009408 DNA-binding site [nucleotide binding]; DNA binding site 269482009409 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009410 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009412 homodimer interface [polypeptide binding]; other site 269482009413 catalytic residue [active] 269482009414 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482009415 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482009416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482009417 Coenzyme A binding pocket [chemical binding]; other site 269482009418 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482009419 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 269482009420 putative NAD(P) binding site [chemical binding]; other site 269482009421 catalytic Zn binding site [ion binding]; other site 269482009422 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482009423 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482009424 active site 269482009425 catalytic tetrad [active] 269482009426 MarC family integral membrane protein; Region: MarC; cl00919 269482009427 enoyl-CoA hydratase; Provisional; Region: PRK05995 269482009428 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482009429 substrate binding site [chemical binding]; other site 269482009430 oxyanion hole (OAH) forming residues; other site 269482009431 trimer interface [polypeptide binding]; other site 269482009432 AMP-binding enzyme; Region: AMP-binding; cl15778 269482009433 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 269482009434 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 269482009435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009436 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482009437 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482009438 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 269482009439 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482009440 Helix-turn-helix domains; Region: HTH; cl00088 269482009441 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 269482009442 putative dimerization interface [polypeptide binding]; other site 269482009443 putative substrate binding pocket [chemical binding]; other site 269482009444 transcriptional regulator; Provisional; Region: PRK10632 269482009445 Helix-turn-helix domains; Region: HTH; cl00088 269482009446 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009447 putative effector binding pocket; other site 269482009448 dimerization interface [polypeptide binding]; other site 269482009449 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 269482009450 HPP family; Region: HPP; pfam04982 269482009451 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482009452 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 269482009453 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009454 Helix-turn-helix domains; Region: HTH; cl00088 269482009455 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 269482009456 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 269482009457 Cl- selectivity filter; other site 269482009458 Cl- binding residues [ion binding]; other site 269482009459 pore gating glutamate residue; other site 269482009460 dimer interface [polypeptide binding]; other site 269482009461 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482009462 FOG: CBS domain [General function prediction only]; Region: COG0517 269482009463 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 269482009464 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 269482009465 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 269482009466 Helix-turn-helix domains; Region: HTH; cl00088 269482009467 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009468 dimerization interface [polypeptide binding]; other site 269482009469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009470 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482009471 putative substrate translocation pore; other site 269482009472 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009473 trimer interface [polypeptide binding]; other site 269482009474 eyelet of channel; other site 269482009475 DoxX; Region: DoxX; cl00976 269482009476 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009477 Cytochrome c; Region: Cytochrom_C; cl11414 269482009478 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482009479 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482009480 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 269482009481 Bacterial Ig-like domain; Region: Big_5; cl01012 269482009482 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 269482009483 MG2 domain; Region: A2M_N; pfam01835 269482009484 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 269482009485 Alpha-2-macroglobulin family; Region: A2M; pfam00207 269482009486 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 269482009487 Transglycosylase; Region: Transgly; cl07896 269482009488 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482009489 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 269482009490 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482009491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009492 putative substrate translocation pore; other site 269482009493 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482009495 substrate binding pocket [chemical binding]; other site 269482009496 membrane-bound complex binding site; other site 269482009497 hinge residues; other site 269482009498 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 269482009499 active site 269482009500 catalytic triad [active] 269482009501 magnesium-transporting ATPase; Provisional; Region: PRK15122 269482009502 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 269482009503 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482009504 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 269482009505 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482009506 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482009507 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 269482009508 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482009509 Helix-turn-helix domains; Region: HTH; cl00088 269482009510 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482009511 dimerization interface [polypeptide binding]; other site 269482009512 substrate binding pocket [chemical binding]; other site 269482009513 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 269482009514 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482009515 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009516 Helix-turn-helix domains; Region: HTH; cl00088 269482009517 Isochorismatase family; Region: Isochorismatase; pfam00857 269482009518 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 269482009519 catalytic triad [active] 269482009520 conserved cis-peptide bond; other site 269482009521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009522 putative substrate translocation pore; other site 269482009523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009524 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009526 DNA-binding site [nucleotide binding]; DNA binding site 269482009527 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009529 homodimer interface [polypeptide binding]; other site 269482009530 catalytic residue [active] 269482009531 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 269482009532 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 269482009533 putative molybdopterin cofactor binding site [chemical binding]; other site 269482009534 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 269482009535 putative molybdopterin cofactor binding site; other site 269482009536 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 269482009537 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 269482009538 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482009539 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482009540 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482009541 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 269482009542 Cupin domain; Region: Cupin_2; cl09118 269482009543 Cupin domain; Region: Cupin_2; cl09118 269482009544 HipA N-terminal domain; Region: Couple_hipA; cl11853 269482009545 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 269482009546 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482009547 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482009548 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482009549 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482009550 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482009551 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482009552 putative active site [active] 269482009553 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 269482009554 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 269482009555 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482009556 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269482009557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009558 dimer interface [polypeptide binding]; other site 269482009559 conserved gate region; other site 269482009560 putative PBP binding loops; other site 269482009561 ABC-ATPase subunit interface; other site 269482009562 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 269482009563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009564 dimer interface [polypeptide binding]; other site 269482009565 conserved gate region; other site 269482009566 putative PBP binding loops; other site 269482009567 ABC-ATPase subunit interface; other site 269482009568 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 269482009569 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482009570 Walker A/P-loop; other site 269482009571 ATP binding site [chemical binding]; other site 269482009572 Q-loop/lid; other site 269482009573 ABC transporter signature motif; other site 269482009574 Walker B; other site 269482009575 D-loop; other site 269482009576 H-loop/switch region; other site 269482009577 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 269482009578 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482009579 Walker A/P-loop; other site 269482009580 ATP binding site [chemical binding]; other site 269482009581 Q-loop/lid; other site 269482009582 ABC transporter signature motif; other site 269482009583 Walker B; other site 269482009584 D-loop; other site 269482009585 H-loop/switch region; other site 269482009586 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 269482009587 Helix-turn-helix domains; Region: HTH; cl00088 269482009588 transcriptional regulator; Provisional; Region: PRK10632 269482009589 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009590 putative effector binding pocket; other site 269482009591 dimerization interface [polypeptide binding]; other site 269482009592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009593 NmrA-like family; Region: NmrA; pfam05368 269482009594 NAD(P) binding site [chemical binding]; other site 269482009595 active site 269482009596 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482009597 Helix-turn-helix domains; Region: HTH; cl00088 269482009598 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482009599 substrate binding pocket [chemical binding]; other site 269482009600 dimerization interface [polypeptide binding]; other site 269482009601 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482009602 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482009603 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 269482009604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009605 Helix-turn-helix domains; Region: HTH; cl00088 269482009606 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 269482009607 putative dimerization interface [polypeptide binding]; other site 269482009608 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482009609 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009610 trimer interface [polypeptide binding]; other site 269482009611 eyelet of channel; other site 269482009612 OpgC protein; Region: OpgC_C; cl00792 269482009613 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482009614 Putative esterase; Region: Esterase; pfam00756 269482009615 Cupin domain; Region: Cupin_2; cl09118 269482009616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482009617 metal binding site [ion binding]; metal-binding site 269482009618 active site 269482009619 I-site; other site 269482009620 PAAR motif; Region: PAAR_motif; cl15808 269482009621 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 269482009622 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 269482009623 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482009624 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482009625 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 269482009626 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482009627 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482009628 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482009629 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 269482009630 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482009631 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482009632 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482009633 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 269482009634 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482009635 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 269482009636 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482009637 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 269482009638 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 269482009639 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009640 eyelet of channel; other site 269482009641 trimer interface [polypeptide binding]; other site 269482009642 LysE type translocator; Region: LysE; cl00565 269482009643 threonine dehydratase; Reviewed; Region: PRK09224 269482009644 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482009645 tetramer interface [polypeptide binding]; other site 269482009646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009647 catalytic residue [active] 269482009648 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 269482009649 putative Ile/Val binding site [chemical binding]; other site 269482009650 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 269482009651 putative Ile/Val binding site [chemical binding]; other site 269482009652 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482009653 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482009654 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 269482009655 LysE type translocator; Region: LysE; cl00565 269482009656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 269482009657 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482009658 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482009659 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482009660 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482009661 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 269482009662 AMP-binding enzyme; Region: AMP-binding; cl15778 269482009663 AMP-binding enzyme; Region: AMP-binding; cl15778 269482009664 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482009665 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 269482009666 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 269482009667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482009668 catalytic residue [active] 269482009669 argininosuccinate lyase; Provisional; Region: PRK02186 269482009670 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482009671 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 269482009672 active sites [active] 269482009673 tetramer interface [polypeptide binding]; other site 269482009674 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482009675 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 269482009676 putative active site [active] 269482009677 putative cosubstrate binding site; other site 269482009678 putative substrate binding site [chemical binding]; other site 269482009679 catalytic site [active] 269482009680 LysE type translocator; Region: LysE; cl00565 269482009681 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 269482009682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482009683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009684 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482009685 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482009686 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482009687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482009688 dimer interface [polypeptide binding]; other site 269482009689 putative CheW interface [polypeptide binding]; other site 269482009690 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482009691 Ion channel; Region: Ion_trans_2; cl11596 269482009692 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 269482009693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009694 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482009695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009696 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 269482009697 dimanganese center [ion binding]; other site 269482009698 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482009699 dinuclear metal binding motif [ion binding]; other site 269482009700 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269482009701 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 269482009702 ring oligomerisation interface [polypeptide binding]; other site 269482009703 ATP/Mg binding site [chemical binding]; other site 269482009704 stacking interactions; other site 269482009705 hinge regions; other site 269482009706 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 269482009707 oligomerisation interface [polypeptide binding]; other site 269482009708 mobile loop; other site 269482009709 roof hairpin; other site 269482009710 BetR domain; Region: BetR; pfam08667 269482009711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009712 active site 269482009713 phosphorylation site [posttranslational modification] 269482009714 intermolecular recognition site; other site 269482009715 dimerization interface [polypeptide binding]; other site 269482009716 AAA domain; Region: AAA_22; pfam13401 269482009717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482009718 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269482009719 Family description; Region: UvrD_C_2; cl15862 269482009720 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482009721 dimer interface [polypeptide binding]; other site 269482009722 ligand binding site [chemical binding]; other site 269482009723 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482009724 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482009725 dimer interface [polypeptide binding]; other site 269482009726 putative CheW interface [polypeptide binding]; other site 269482009727 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482009728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009729 putative substrate translocation pore; other site 269482009730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009731 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 269482009732 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 269482009733 NADP binding site [chemical binding]; other site 269482009734 dimer interface [polypeptide binding]; other site 269482009735 Helix-turn-helix domains; Region: HTH; cl00088 269482009736 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009737 dimerization interface [polypeptide binding]; other site 269482009738 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 269482009739 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482009740 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 269482009741 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482009742 DNA binding residues [nucleotide binding] 269482009743 putative dimer interface [polypeptide binding]; other site 269482009744 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482009745 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009746 substrate binding pocket [chemical binding]; other site 269482009747 membrane-bound complex binding site; other site 269482009748 hinge residues; other site 269482009749 Arginase family; Region: Arginase; cl00306 269482009750 YhhN-like protein; Region: YhhN; cl01505 269482009751 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482009752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009753 short chain dehydrogenase; Provisional; Region: PRK07832 269482009754 classical (c) SDRs; Region: SDR_c; cd05233 269482009755 NAD(P) binding site [chemical binding]; other site 269482009756 active site 269482009757 short chain dehydrogenase; Validated; Region: PRK05855 269482009758 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482009759 Urea transporter; Region: UT; cl01829 269482009760 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 269482009761 Leucine carboxyl methyltransferase; Region: LCM; cl01306 269482009762 N-acetyltransferase; Region: Acetyltransf_2; cl00949 269482009763 amidase; Provisional; Region: PRK07486 269482009764 Amidase; Region: Amidase; cl11426 269482009765 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482009766 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 269482009767 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 269482009768 heme binding site [chemical binding]; other site 269482009769 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 269482009770 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482009771 Ligand Binding Site [chemical binding]; other site 269482009772 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482009773 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482009774 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 269482009775 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 269482009776 trimer interface [polypeptide binding]; other site 269482009777 putative Zn binding site [ion binding]; other site 269482009778 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 269482009779 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482009780 catalytic loop [active] 269482009781 iron binding site [ion binding]; other site 269482009782 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 269482009783 FAD binding pocket [chemical binding]; other site 269482009784 conserved FAD binding motif [chemical binding]; other site 269482009785 phosphate binding motif [ion binding]; other site 269482009786 beta-alpha-beta structure motif; other site 269482009787 NAD binding pocket [chemical binding]; other site 269482009788 hybrid cluster protein; Provisional; Region: PRK05290 269482009789 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482009790 ACS interaction site; other site 269482009791 CODH interaction site; other site 269482009792 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 269482009793 hybrid metal cluster; other site 269482009794 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 269482009795 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482009796 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482009797 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009798 protein binding site [polypeptide binding]; other site 269482009799 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009800 protein binding site [polypeptide binding]; other site 269482009801 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 269482009802 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 269482009803 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482009804 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 269482009805 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482009806 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482009807 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 269482009808 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482009809 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482009810 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482009811 Surface antigen; Region: Bac_surface_Ag; cl03097 269482009812 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 269482009813 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 269482009814 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 269482009815 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 269482009816 FecR protein; Region: FecR; pfam04773 269482009817 RNA polymerase sigma factor; Reviewed; Region: PRK12527 269482009818 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482009819 Secretin and TonB N terminus short domain; Region: STN; cl06624 269482009820 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482009821 type II secretion system protein F; Region: GspF; TIGR02120 269482009822 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482009823 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482009824 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009825 haemagglutination activity domain; Region: Haemagg_act; cl05436 269482009826 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 269482009827 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009828 TPR motif; other site 269482009829 binding surface 269482009830 TPR repeat; Region: TPR_11; pfam13414 269482009831 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009832 TPR motif; other site 269482009833 binding surface 269482009834 TPR repeat; Region: TPR_11; pfam13414 269482009835 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009836 binding surface 269482009837 TPR motif; other site 269482009838 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009839 TPR motif; other site 269482009840 binding surface 269482009841 TPR repeat; Region: TPR_11; pfam13414 269482009842 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009843 binding surface 269482009844 TPR motif; other site 269482009845 TPR repeat; Region: TPR_11; pfam13414 269482009846 Sec24-related protein; Provisional; Region: PTZ00395 269482009847 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009848 TPR motif; other site 269482009849 binding surface 269482009850 TPR repeat; Region: TPR_11; pfam13414 269482009851 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009852 binding surface 269482009853 TPR motif; other site 269482009854 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482009855 binding surface 269482009856 TPR repeat; Region: TPR_11; pfam13414 269482009857 TPR motif; other site 269482009858 TPR repeat; Region: TPR_11; pfam13414 269482009859 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482009860 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 269482009861 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482009862 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 269482009863 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 269482009864 putative active site [active] 269482009865 putative metal binding site [ion binding]; other site 269482009866 magnesium transport protein MgtC; Provisional; Region: PRK15385 269482009867 MgtC family; Region: MgtC; pfam02308 269482009868 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 269482009869 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482009870 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482009871 DNA binding residues [nucleotide binding] 269482009872 dimerization interface [polypeptide binding]; other site 269482009873 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482009874 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 269482009875 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482009876 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482009877 OpgC protein; Region: OpgC_C; cl00792 269482009878 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482009879 Helix-turn-helix domains; Region: HTH; cl00088 269482009880 Integrase core domain; Region: rve; cl01316 269482009881 OpgC protein; Region: OpgC_C; cl00792 269482009882 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 269482009883 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 269482009884 dimerization interface [polypeptide binding]; other site 269482009885 active site 269482009886 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 269482009887 FOG: CBS domain [General function prediction only]; Region: COG0517 269482009888 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482009889 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 269482009890 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482009891 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009892 trimer interface [polypeptide binding]; other site 269482009893 eyelet of channel; other site 269482009894 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482009895 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482009896 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482009897 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482009898 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482009899 putative active site [active] 269482009900 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482009901 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482009902 Walker A/P-loop; other site 269482009903 ATP binding site [chemical binding]; other site 269482009904 Q-loop/lid; other site 269482009905 ABC transporter signature motif; other site 269482009906 Walker B; other site 269482009907 D-loop; other site 269482009908 H-loop/switch region; other site 269482009909 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 269482009910 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 269482009911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009912 dimer interface [polypeptide binding]; other site 269482009913 conserved gate region; other site 269482009914 putative PBP binding loops; other site 269482009915 ABC-ATPase subunit interface; other site 269482009916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482009917 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482009918 nucleophile elbow; other site 269482009919 Patatin phospholipase; Region: DUF3734; pfam12536 269482009920 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482009921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009922 NAD(P) binding site [chemical binding]; other site 269482009923 active site 269482009924 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482009925 Helix-turn-helix domains; Region: HTH; cl00088 269482009926 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482009927 dimerization interface [polypeptide binding]; other site 269482009928 substrate binding pocket [chemical binding]; other site 269482009929 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482009930 dimerization interface [polypeptide binding]; other site 269482009931 putative DNA binding site [nucleotide binding]; other site 269482009932 putative Zn2+ binding site [ion binding]; other site 269482009933 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482009934 FMN binding site [chemical binding]; other site 269482009935 active site 269482009936 substrate binding site [chemical binding]; other site 269482009937 catalytic residue [active] 269482009938 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482009939 LysE type translocator; Region: LysE; cl00565 269482009940 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 269482009941 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482009942 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482009943 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 269482009944 active site 269482009945 catalytic site [active] 269482009946 putative metal binding site [ion binding]; other site 269482009947 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482009948 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 269482009949 putative dimerization interface [polypeptide binding]; other site 269482009950 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482009951 putative ligand binding site [chemical binding]; other site 269482009952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009953 dimer interface [polypeptide binding]; other site 269482009954 conserved gate region; other site 269482009955 putative PBP binding loops; other site 269482009956 ABC-ATPase subunit interface; other site 269482009957 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009958 dimer interface [polypeptide binding]; other site 269482009959 conserved gate region; other site 269482009960 putative PBP binding loops; other site 269482009961 ABC-ATPase subunit interface; other site 269482009962 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009963 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482009964 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 269482009965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009966 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482009967 NAD(P) binding site [chemical binding]; other site 269482009968 active site 269482009969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009970 Helix-turn-helix domains; Region: HTH; cl00088 269482009971 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009972 dimerization interface [polypeptide binding]; other site 269482009973 Helix-turn-helix domains; Region: HTH; cl00088 269482009974 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009975 dimerization interface [polypeptide binding]; other site 269482009976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009977 putative substrate translocation pore; other site 269482009978 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 269482009979 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 269482009980 short chain dehydrogenase; Provisional; Region: PRK12828 269482009981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009982 NAD(P) binding site [chemical binding]; other site 269482009983 active site 269482009984 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 269482009985 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 269482009986 Cupin domain; Region: Cupin_2; cl09118 269482009987 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482009988 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482009989 EamA-like transporter family; Region: EamA; cl01037 269482009990 EamA-like transporter family; Region: EamA; cl01037 269482009991 Entericidin EcnA/B family; Region: Entericidin; cl02322 269482009992 aspartate carbamoyltransferase; Provisional; Region: PRK11891 269482009993 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482009994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009995 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 269482009996 metal-binding site 269482009997 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 269482009998 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 269482009999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010000 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482010001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482010002 Cache domain; Region: Cache_2; cl07034 269482010003 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482010004 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482010005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482010006 dimer interface [polypeptide binding]; other site 269482010007 putative CheW interface [polypeptide binding]; other site 269482010008 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482010009 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482010010 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010011 Walker A motif; other site 269482010012 ATP binding site [chemical binding]; other site 269482010013 Walker B motif; other site 269482010014 arginine finger; other site 269482010015 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482010016 DNA-binding interface [nucleotide binding]; DNA binding site 269482010017 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 269482010018 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482010019 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482010020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010021 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482010022 catalytic loop [active] 269482010023 iron binding site [ion binding]; other site 269482010024 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482010025 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482010026 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482010027 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 269482010028 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482010029 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010030 DNA binding site [nucleotide binding] 269482010031 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 269482010032 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 269482010033 FliP family; Region: FliP; cl00593 269482010034 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482010035 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482010036 catalytic residue [active] 269482010037 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482010038 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 269482010039 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 269482010040 active site 269482010041 dimer interface [polypeptide binding]; other site 269482010042 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 269482010043 Ligand Binding Site [chemical binding]; other site 269482010044 Molecular Tunnel; other site 269482010045 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 269482010046 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 269482010047 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 269482010048 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 269482010049 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 269482010050 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 269482010051 Walker A motif/ATP binding site; other site 269482010052 Walker B motif; other site 269482010053 type III secretion system protein; Reviewed; Region: PRK06937 269482010054 Flagellar assembly protein FliH; Region: FliH; pfam02108 269482010055 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 269482010056 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 269482010057 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 269482010058 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010059 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010060 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482010061 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 269482010062 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 269482010063 FHIPEP family; Region: FHIPEP; pfam00771 269482010064 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482010065 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482010066 dimerization interface [polypeptide binding]; other site 269482010067 DNA binding residues [nucleotide binding] 269482010068 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482010069 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482010070 DNA binding residues [nucleotide binding] 269482010071 dimerization interface [polypeptide binding]; other site 269482010072 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 269482010073 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482010074 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 269482010075 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269482010076 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482010077 hydrophobic ligand binding site; other site 269482010078 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 269482010079 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010080 putative transporter; Provisional; Region: PRK10504 269482010081 putative substrate translocation pore; other site 269482010082 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 269482010083 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 269482010084 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482010085 acetate kinase; Region: ackA; TIGR00016 269482010086 Acetokinase family; Region: Acetate_kinase; cl01029 269482010087 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482010088 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010089 Helix-turn-helix domains; Region: HTH; cl00088 269482010090 Integrase core domain; Region: rve; cl01316 269482010091 ATP synthase; Region: ATP-synt; cl00365 269482010092 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 269482010093 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 269482010094 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 269482010095 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 269482010096 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 269482010097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482010098 Coenzyme A binding pocket [chemical binding]; other site 269482010099 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269482010100 Domain of unknown function (DUF305); Region: DUF305; cl15795 269482010101 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482010102 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482010103 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 269482010104 Helix-turn-helix domains; Region: HTH; cl00088 269482010105 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482010106 dimerization interface [polypeptide binding]; other site 269482010107 diaminopimelate decarboxylase; Provisional; Region: PRK11165 269482010108 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 269482010109 active site 269482010110 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482010111 substrate binding site [chemical binding]; other site 269482010112 catalytic residues [active] 269482010113 dimer interface [polypeptide binding]; other site 269482010114 EamA-like transporter family; Region: EamA; cl01037 269482010115 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482010116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482010117 DNA-binding site [nucleotide binding]; DNA binding site 269482010118 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482010119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010120 homodimer interface [polypeptide binding]; other site 269482010121 catalytic residue [active] 269482010122 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 269482010123 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 269482010124 active site 269482010125 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 269482010126 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482010127 active site 269482010128 nucleotide binding site [chemical binding]; other site 269482010129 HIGH motif; other site 269482010130 KMSKS motif; other site 269482010131 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 269482010132 nudix motif; other site 269482010133 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 269482010134 active site 269482010135 metal binding site [ion binding]; metal-binding site 269482010136 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482010137 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482010138 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482010139 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482010140 non-specific DNA binding site [nucleotide binding]; other site 269482010141 salt bridge; other site 269482010142 sequence-specific DNA binding site [nucleotide binding]; other site 269482010143 Cupin domain; Region: Cupin_2; cl09118 269482010144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010145 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482010146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482010147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010148 ATP binding site [chemical binding]; other site 269482010149 Mg2+ binding site [ion binding]; other site 269482010150 G-X-G motif; other site 269482010151 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482010152 active site 2 [active] 269482010153 active site 1 [active] 269482010154 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482010155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482010156 active site 269482010157 phosphorylation site [posttranslational modification] 269482010158 intermolecular recognition site; other site 269482010159 dimerization interface [polypeptide binding]; other site 269482010160 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 269482010161 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482010162 benzoate transport; Region: 2A0115; TIGR00895 269482010163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010164 putative substrate translocation pore; other site 269482010165 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 269482010166 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 269482010167 active site 269482010168 catalytic residues [active] 269482010169 metal binding site [ion binding]; metal-binding site 269482010170 DmpG-like communication domain; Region: DmpG_comm; pfam07836 269482010171 acetaldehyde dehydrogenase; Validated; Region: PRK08300 269482010172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010173 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 269482010174 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482010175 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 269482010176 active site 269482010177 metal binding site [ion binding]; metal-binding site 269482010178 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 269482010179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010180 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 269482010181 Helix-turn-helix domains; Region: HTH; cl00088 269482010182 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482010183 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 269482010184 Flavin binding site [chemical binding]; other site 269482010185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482010186 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482010187 active site 269482010188 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482010189 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482010190 active site 269482010191 non-prolyl cis peptide bond; other site 269482010192 benzoate transport; Region: 2A0115; TIGR00895 269482010193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010194 putative substrate translocation pore; other site 269482010195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010196 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482010197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010198 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482010199 putative substrate translocation pore; other site 269482010200 Uncharacterized conserved protein [Function unknown]; Region: COG3777 269482010201 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482010202 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482010203 active site 2 [active] 269482010204 active site 1 [active] 269482010205 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482010206 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482010207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010208 Helix-turn-helix domains; Region: HTH; cl00088 269482010209 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 269482010210 putative dimerization interface [polypeptide binding]; other site 269482010211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482010212 metal binding site [ion binding]; metal-binding site 269482010213 active site 269482010214 I-site; other site 269482010215 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 269482010216 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 269482010217 multidrug efflux protein; Reviewed; Region: PRK09579 269482010218 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482010219 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482010220 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482010221 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482010222 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010223 putative substrate translocation pore; other site 269482010224 Thermostable hemolysin; Region: T_hemolysin; pfam12261 269482010225 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 269482010226 AMP-binding enzyme; Region: AMP-binding; cl15778 269482010227 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 269482010228 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 269482010229 substrate binding pocket [chemical binding]; other site 269482010230 active site 269482010231 iron coordination sites [ion binding]; other site 269482010232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010233 Helix-turn-helix domains; Region: HTH; cl00088 269482010234 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482010235 substrate binding pocket [chemical binding]; other site 269482010236 dimerization interface [polypeptide binding]; other site 269482010237 Helix-turn-helix domains; Region: HTH; cl00088 269482010238 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482010239 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482010240 Flavin Reductases; Region: FlaRed; cl00801 269482010241 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 269482010242 AMP-binding enzyme; Region: AMP-binding; cl15778 269482010243 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 269482010244 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482010245 substrate binding site [chemical binding]; other site 269482010246 oxyanion hole (OAH) forming residues; other site 269482010247 trimer interface [polypeptide binding]; other site 269482010248 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482010249 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 269482010250 Creatinine amidohydrolase; Region: Creatininase; cl00618 269482010251 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 269482010252 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482010253 substrate binding site [chemical binding]; other site 269482010254 oxyanion hole (OAH) forming residues; other site 269482010255 trimer interface [polypeptide binding]; other site 269482010256 Cupin domain; Region: Cupin_2; cl09118 269482010257 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482010258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010259 acyl-CoA synthetase; Validated; Region: PRK08162 269482010260 AMP-binding enzyme; Region: AMP-binding; cl15778 269482010261 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482010262 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 269482010263 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 269482010264 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 269482010265 dimerization interface [polypeptide binding]; other site 269482010266 active site 269482010267 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482010268 Helix-turn-helix domains; Region: HTH; cl00088 269482010269 AsnC family; Region: AsnC_trans_reg; pfam01037 269482010270 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482010271 E3 interaction surface; other site 269482010272 lipoyl attachment site [posttranslational modification]; other site 269482010273 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 269482010274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482010276 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482010277 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482010278 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 269482010279 E3 interaction surface; other site 269482010280 lipoyl attachment site [posttranslational modification]; other site 269482010281 e3 binding domain; Region: E3_binding; pfam02817 269482010282 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 269482010283 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 269482010284 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 269482010285 dimer interface [polypeptide binding]; other site 269482010286 TPP-binding site [chemical binding]; other site 269482010287 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 269482010288 Cupin domain; Region: Cupin_2; cl09118 269482010289 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482010290 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482010291 benzoate transport; Region: 2A0115; TIGR00895 269482010292 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010293 putative substrate translocation pore; other site 269482010294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010295 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010296 trimer interface [polypeptide binding]; other site 269482010297 eyelet of channel; other site 269482010298 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482010299 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 269482010300 Protein of unknown function, DUF488; Region: DUF488; cl01246 269482010301 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 269482010302 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482010303 Phospholipid methyltransferase; Region: PEMT; cl00763 269482010304 TfoX N-terminal domain; Region: TfoX_N; cl01167 269482010305 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 269482010306 hypothetical protein; Provisional; Region: PRK07907 269482010307 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 269482010308 metal binding site [ion binding]; metal-binding site 269482010309 putative dimer interface [polypeptide binding]; other site 269482010310 arginine:agmatin antiporter; Provisional; Region: PRK10644 269482010311 arginine decarboxylase; Provisional; Region: PRK15029 269482010312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482010313 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482010314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482010315 catalytic residue [active] 269482010316 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 269482010317 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 269482010318 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482010319 conserved cys residue [active] 269482010320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010322 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 269482010323 active site residue [active] 269482010324 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 269482010325 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 269482010326 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 269482010327 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 269482010328 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482010329 tetramer interface [polypeptide binding]; other site 269482010330 active site 269482010331 Mg2+/Mn2+ binding site [ion binding]; other site 269482010332 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482010333 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482010334 putative active site [active] 269482010335 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 269482010336 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 269482010337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010338 active site 269482010339 phosphorylation site [posttranslational modification] 269482010340 intermolecular recognition site; other site 269482010341 dimerization interface [polypeptide binding]; other site 269482010342 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010343 DNA binding site [nucleotide binding] 269482010344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482010345 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482010346 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482010347 dimer interface [polypeptide binding]; other site 269482010348 phosphorylation site [posttranslational modification] 269482010349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010350 ATP binding site [chemical binding]; other site 269482010351 Mg2+ binding site [ion binding]; other site 269482010352 G-X-G motif; other site 269482010353 Protein of unknown function (DUF805); Region: DUF805; cl01224 269482010354 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482010355 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482010356 Helix-turn-helix domains; Region: HTH; cl00088 269482010357 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 269482010358 putative dimerization interface [polypeptide binding]; other site 269482010359 putative substrate binding pocket [chemical binding]; other site 269482010360 DnaA N-terminal domain; Region: DnaA_N; pfam11638 269482010361 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 269482010362 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010363 Walker A motif; other site 269482010364 ATP binding site [chemical binding]; other site 269482010365 Walker B motif; other site 269482010366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010367 arginine finger; other site 269482010368 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 269482010369 DnaA box-binding interface [nucleotide binding]; other site 269482010370 DNA polymerase III subunit beta; Validated; Region: PRK05643 269482010371 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 269482010372 putative DNA binding surface [nucleotide binding]; other site 269482010373 dimer interface [polypeptide binding]; other site 269482010374 beta-clamp/clamp loader binding surface; other site 269482010375 beta-clamp/translesion DNA polymerase binding surface; other site 269482010376 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 269482010377 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010378 ATP binding site [chemical binding]; other site 269482010379 Mg2+ binding site [ion binding]; other site 269482010380 G-X-G motif; other site 269482010381 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482010382 anchoring element; other site 269482010383 dimer interface [polypeptide binding]; other site 269482010384 ATP binding site [chemical binding]; other site 269482010385 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 269482010386 active site 269482010387 putative metal-binding site [ion binding]; other site 269482010388 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482010389 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 269482010390 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 269482010391 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482010392 ATP binding site [chemical binding]; other site 269482010393 putative Mg++ binding site [ion binding]; other site 269482010394 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 269482010395 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 269482010396 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482010397 DNA binding residues [nucleotide binding] 269482010398 Integrase core domain; Region: rve; cl01316 269482010399 Integrase core domain; Region: rve_3; cl15866 269482010400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482010401 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482010402 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482010403 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010404 Walker A motif; other site 269482010405 ATP binding site [chemical binding]; other site 269482010406 Walker B motif; other site 269482010407 arginine finger; other site 269482010408 HsdM N-terminal domain; Region: HsdM_N; pfam12161 269482010409 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 269482010410 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010411 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482010412 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482010413 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482010414 MULE transposase domain; Region: MULE; pfam10551 269482010415 Helix-turn-helix domains; Region: HTH; cl00088 269482010416 HTH-like domain; Region: HTH_21; pfam13276 269482010417 Integrase core domain; Region: rve; cl01316 269482010418 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010419 Helix-turn-helix domains; Region: HTH; cl00088 269482010420 Integrase core domain; Region: rve; cl01316 269482010421 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482010422 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 269482010423 putative heme binding pocket [chemical binding]; other site 269482010424 RNA polymerase sigma factor; Provisional; Region: PRK12511 269482010425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482010426 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482010427 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 269482010428 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 269482010429 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482010430 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482010431 TIGR03440 family protein; Region: unchr_TIGR03440 269482010432 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 269482010433 probable methyltransferase; Region: TIGR03438 269482010434 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 269482010435 Restriction endonuclease [Defense mechanisms]; Region: COG3587 269482010436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010437 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 269482010438 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010439 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010440 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010441 trimer interface [polypeptide binding]; other site 269482010442 eyelet of channel; other site 269482010443 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482010444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010445 active site 269482010446 phosphorylation site [posttranslational modification] 269482010447 intermolecular recognition site; other site 269482010448 dimerization interface [polypeptide binding]; other site 269482010449 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010450 DNA binding site [nucleotide binding] 269482010451 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482010452 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482010453 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482010454 dimer interface [polypeptide binding]; other site 269482010455 phosphorylation site [posttranslational modification] 269482010456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010457 ATP binding site [chemical binding]; other site 269482010458 Mg2+ binding site [ion binding]; other site 269482010459 G-X-G motif; other site 269482010460 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482010461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482010462 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482010463 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482010464 Walker A/P-loop; other site 269482010465 ATP binding site [chemical binding]; other site 269482010466 Q-loop/lid; other site 269482010467 ABC transporter signature motif; other site 269482010468 Walker B; other site 269482010469 D-loop; other site 269482010470 H-loop/switch region; other site 269482010471 NMT1-like family; Region: NMT1_2; cl15260 269482010472 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 269482010473 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 269482010474 FliP family; Region: FliP; cl00593 269482010475 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 269482010476 flagellar motor switch protein; Validated; Region: fliN; PRK05698 269482010477 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 269482010478 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 269482010479 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 269482010480 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 269482010481 LrgB-like family; Region: LrgB; cl00596 269482010482 LrgA family; Region: LrgA; cl00608 269482010483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010484 Helix-turn-helix domains; Region: HTH; cl00088 269482010485 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 269482010486 putative dimerization interface [polypeptide binding]; other site 269482010487 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482010488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010489 putative substrate translocation pore; other site 269482010490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010491 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482010492 Helix-turn-helix domains; Region: HTH; cl00088 269482010493 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482010494 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 269482010495 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 269482010496 GspL periplasmic domain; Region: GspL_C; cl14909 269482010497 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 269482010498 type II secretion system protein I; Region: gspI; TIGR01707 269482010499 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 269482010500 Type II transport protein GspH; Region: GspH; pfam12019 269482010501 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482010502 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 269482010503 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 269482010504 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 269482010505 type II secretion system protein F; Region: GspF; TIGR02120 269482010506 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482010507 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482010508 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482010509 type II secretion system protein E; Region: type_II_gspE; TIGR02533 269482010510 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 269482010511 Walker A motif; other site 269482010512 ATP binding site [chemical binding]; other site 269482010513 Walker B motif; other site 269482010514 type II secretion system protein D; Region: type_II_gspD; TIGR02517 269482010515 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010516 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010517 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010518 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 269482010519 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482010520 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010521 Helix-turn-helix domains; Region: HTH; cl00088 269482010522 Integrase core domain; Region: rve; cl01316 269482010523 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482010524 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482010525 catalytic residue [active] 269482010526 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 269482010527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010528 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 269482010529 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482010530 IHF dimer interface [polypeptide binding]; other site 269482010531 IHF - DNA interface [nucleotide binding]; other site 269482010532 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 269482010533 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010535 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 269482010536 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 269482010537 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482010538 Helix-turn-helix domains; Region: HTH; cl00088 269482010539 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 269482010540 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 269482010541 catalytic triad [active] 269482010542 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 269482010543 active site 269482010544 FMN binding site [chemical binding]; other site 269482010545 substrate binding site [chemical binding]; other site 269482010546 homotetramer interface [polypeptide binding]; other site 269482010547 catalytic residue [active] 269482010548 SET domain; Region: SET; cl02566 269482010549 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482010550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482010551 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482010552 dimer interface [polypeptide binding]; other site 269482010553 phosphorylation site [posttranslational modification] 269482010554 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010555 ATP binding site [chemical binding]; other site 269482010556 Mg2+ binding site [ion binding]; other site 269482010557 G-X-G motif; other site 269482010558 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482010559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010560 active site 269482010561 phosphorylation site [posttranslational modification] 269482010562 intermolecular recognition site; other site 269482010563 dimerization interface [polypeptide binding]; other site 269482010564 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010565 DNA binding site [nucleotide binding] 269482010566 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482010567 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 269482010568 aromatic arch; other site 269482010569 DCoH dimer interaction site [polypeptide binding]; other site 269482010570 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 269482010571 DCoH tetramer interaction site [polypeptide binding]; other site 269482010572 substrate binding site [chemical binding]; other site 269482010573 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 269482010574 cofactor binding site; other site 269482010575 metal binding site [ion binding]; metal-binding site 269482010576 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482010577 Helix-turn-helix domains; Region: HTH; cl00088 269482010578 AsnC family; Region: AsnC_trans_reg; pfam01037 269482010579 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 269482010580 putative active site [active] 269482010581 putative metal binding residues [ion binding]; other site 269482010582 signature motif; other site 269482010583 putative triphosphate binding site [ion binding]; other site 269482010584 dimer interface [polypeptide binding]; other site 269482010585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010586 Helix-turn-helix domains; Region: HTH; cl00088 269482010587 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482010588 dimerization interface [polypeptide binding]; other site 269482010589 choline dehydrogenase; Validated; Region: PRK02106 269482010590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010591 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482010592 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482010593 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482010594 Walker A/P-loop; other site 269482010595 ATP binding site [chemical binding]; other site 269482010596 Q-loop/lid; other site 269482010597 ABC transporter signature motif; other site 269482010598 Walker B; other site 269482010599 D-loop; other site 269482010600 H-loop/switch region; other site 269482010601 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482010602 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482010603 Walker A/P-loop; other site 269482010604 ATP binding site [chemical binding]; other site 269482010605 Q-loop/lid; other site 269482010606 ABC transporter signature motif; other site 269482010607 Walker B; other site 269482010608 D-loop; other site 269482010609 H-loop/switch region; other site 269482010610 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482010611 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 269482010612 putative ligand binding site [chemical binding]; other site 269482010613 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482010614 TM-ABC transporter signature motif; other site 269482010615 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482010616 TM-ABC transporter signature motif; other site 269482010617 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482010618 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 269482010619 putative ligand binding site [chemical binding]; other site 269482010620 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482010621 TM-ABC transporter signature motif; other site 269482010622 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482010623 TM-ABC transporter signature motif; other site 269482010624 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482010625 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482010626 Walker A/P-loop; other site 269482010627 ATP binding site [chemical binding]; other site 269482010628 Q-loop/lid; other site 269482010629 ABC transporter signature motif; other site 269482010630 Walker B; other site 269482010631 D-loop; other site 269482010632 H-loop/switch region; other site 269482010633 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482010634 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482010635 Walker A/P-loop; other site 269482010636 ATP binding site [chemical binding]; other site 269482010637 Q-loop/lid; other site 269482010638 ABC transporter signature motif; other site 269482010639 Walker B; other site 269482010640 D-loop; other site 269482010641 H-loop/switch region; other site 269482010642 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 269482010643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010645 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 269482010646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482010647 S-adenosylmethionine binding site [chemical binding]; other site 269482010648 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482010649 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482010650 P-loop; other site 269482010651 Magnesium ion binding site [ion binding]; other site 269482010652 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482010653 Magnesium ion binding site [ion binding]; other site 269482010654 ParB-like nuclease domain; Region: ParBc; cl02129 269482010655 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 269482010656 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269482010657 transmembrane helices; other site 269482010658 ATP synthase I chain; Region: ATP_synt_I; cl09170 269482010659 ATP synthase A chain; Region: ATP-synt_A; cl00413 269482010660 ATP synthase subunit C; Region: ATP-synt_C; cl00466 269482010661 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 269482010662 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 269482010663 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 269482010664 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 269482010665 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 269482010666 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 269482010667 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 269482010668 beta subunit interaction interface [polypeptide binding]; other site 269482010669 Walker A motif; other site 269482010670 ATP binding site [chemical binding]; other site 269482010671 Walker B motif; other site 269482010672 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269482010673 ATP synthase; Region: ATP-synt; cl00365 269482010674 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 269482010675 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 269482010676 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 269482010677 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 269482010678 alpha subunit interaction interface [polypeptide binding]; other site 269482010679 Walker A motif; other site 269482010680 ATP binding site [chemical binding]; other site 269482010681 Walker B motif; other site 269482010682 inhibitor binding site; inhibition site 269482010683 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269482010684 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 269482010685 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 269482010686 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 269482010687 AMP-binding domain protein; Validated; Region: PRK08315 269482010688 AMP-binding enzyme; Region: AMP-binding; cl15778 269482010689 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482010690 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482010691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482010692 substrate binding pocket [chemical binding]; other site 269482010693 membrane-bound complex binding site; other site 269482010694 hinge residues; other site 269482010695 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 269482010696 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 269482010697 substrate binding site [chemical binding]; other site 269482010698 active site 269482010699 primosome assembly protein PriA; Validated; Region: PRK05580 269482010700 primosome assembly protein PriA; Validated; Region: PRK05580 269482010701 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482010702 ATP binding site [chemical binding]; other site 269482010703 putative Mg++ binding site [ion binding]; other site 269482010704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010705 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 269482010706 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 269482010707 Proline dehydrogenase; Region: Pro_dh; cl03282 269482010708 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 269482010709 Glutamate binding site [chemical binding]; other site 269482010710 NAD binding site [chemical binding]; other site 269482010711 catalytic residues [active] 269482010712 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482010713 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482010714 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482010715 dimerization interface [polypeptide binding]; other site 269482010716 ligand binding site [chemical binding]; other site 269482010717 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482010718 active site 269482010719 Helix-turn-helix domains; Region: HTH; cl00088 269482010720 putative aminotransferase; Provisional; Region: PRK12414 269482010721 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482010722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010723 homodimer interface [polypeptide binding]; other site 269482010724 catalytic residue [active] 269482010725 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482010726 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482010727 substrate binding pocket [chemical binding]; other site 269482010728 membrane-bound complex binding site; other site 269482010729 hinge residues; other site 269482010730 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482010731 FAD binding domain; Region: FAD_binding_4; pfam01565 269482010732 Helix-turn-helix domains; Region: HTH; cl00088 269482010733 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 269482010734 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 269482010735 DNA binding residues [nucleotide binding] 269482010736 dimer interface [polypeptide binding]; other site 269482010737 putative metal binding site [ion binding]; other site 269482010738 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482010739 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 269482010740 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482010741 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482010742 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 269482010743 Conserved TM helix; Region: TM_helix; pfam05552 269482010744 Spore germination protein; Region: Spore_permease; cl15802 269482010745 ethanolamine permease; Region: 2A0305; TIGR00908 269482010746 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 269482010747 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 269482010748 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 269482010749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010750 Helix-turn-helix domains; Region: HTH; cl00088 269482010751 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 269482010752 putative effector binding pocket; other site 269482010753 putative dimerization interface [polypeptide binding]; other site 269482010754 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482010755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010756 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482010757 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482010758 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482010759 NAD(P) binding site [chemical binding]; other site 269482010760 catalytic residues [active] 269482010761 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482010762 transcriptional regulator EutR; Provisional; Region: PRK10130 269482010763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010764 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482010765 thiamine pyrophosphate protein; Validated; Region: PRK08199 269482010766 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482010767 PYR/PP interface [polypeptide binding]; other site 269482010768 dimer interface [polypeptide binding]; other site 269482010769 TPP binding site [chemical binding]; other site 269482010770 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482010771 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 269482010772 TPP-binding site [chemical binding]; other site 269482010773 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482010774 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482010775 oligomeric interface; other site 269482010776 putative active site [active] 269482010777 homodimer interface [polypeptide binding]; other site 269482010778 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482010779 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482010780 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 269482010781 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 269482010782 glycine dehydrogenase; Provisional; Region: PRK05367 269482010783 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 269482010784 tetramer interface [polypeptide binding]; other site 269482010785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010786 catalytic residue [active] 269482010787 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 269482010788 tetramer interface [polypeptide binding]; other site 269482010789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010790 catalytic residue [active] 269482010791 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 269482010792 lipoyl attachment site [posttranslational modification]; other site 269482010793 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 269482010794 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482010795 putative oxidoreductase; Provisional; Region: PRK11579 269482010796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010797 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 269482010798 active site 269482010799 catalytic triad [active] 269482010800 oxyanion hole [active] 269482010801 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 269482010802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010803 Family description; Region: UvrD_C_2; cl15862 269482010804 Cytochrome c; Region: Cytochrom_C; cl11414 269482010805 Cytochrome c; Region: Cytochrom_C; cl11414 269482010806 TniQ; Region: TniQ; pfam06527 269482010807 AAA domain; Region: AAA_22; pfam13401 269482010808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010809 ATP binding site [chemical binding]; other site 269482010810 putative Mg++ binding site [ion binding]; other site 269482010811 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 269482010812 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 269482010813 Integrase core domain; Region: rve; cl01316 269482010814 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482010815 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482010816 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 269482010817 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 269482010818 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 269482010819 ATP binding site [chemical binding]; other site 269482010820 substrate interface [chemical binding]; other site 269482010821 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 269482010822 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 269482010823 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482010824 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482010825 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010826 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 269482010827 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 269482010828 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482010829 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 269482010830 homodimer interface [polypeptide binding]; other site 269482010831 putative active site [active] 269482010832 putative active site [active] 269482010833 catalytic site [active] 269482010834 catalytic site [active] 269482010835 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 269482010836 putative homodimer interface [polypeptide binding]; other site 269482010837 putative active site [active] 269482010838 catalytic site [active] 269482010839 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482010840 DNA primase domain-containing protein; Region: PHA02415 269482010841 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 269482010842 Integrase core domain; Region: rve; cl01316 269482010843 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482010844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482010845 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482010846 transposase/IS protein; Provisional; Region: PRK09183 269482010847 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010848 Walker A motif; other site 269482010849 ATP binding site [chemical binding]; other site 269482010850 Walker B motif; other site 269482010851 Helix-turn-helix domains; Region: HTH; cl00088 269482010852 Flagellar protein FliT; Region: FliT; cl05125 269482010853 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 269482010854 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 269482010855 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 269482010856 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482010857 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 269482010858 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 269482010859 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 269482010860 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 269482010861 putative hydrolase; Provisional; Region: PRK10976 269482010862 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482010863 active site 269482010864 motif I; other site 269482010865 motif II; other site 269482010866 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482010867 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 269482010868 amphipathic channel; other site 269482010869 Asn-Pro-Ala signature motifs; other site 269482010870 H-NS histone family; Region: Histone_HNS; pfam00816 269482010871 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482010872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482010873 putative ADP-binding pocket [chemical binding]; other site 269482010874 Helix-turn-helix domains; Region: HTH; cl00088 269482010875 Winged helix-turn helix; Region: HTH_29; pfam13551 269482010876 Helix-turn-helix domains; Region: HTH; cl00088 269482010877 Winged helix-turn helix; Region: HTH_33; pfam13592 269482010878 Integrase core domain; Region: rve; cl01316 269482010879 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 269482010880 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 269482010881 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 269482010882 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482010883 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 269482010884 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 269482010885 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482010886 ligand binding site [chemical binding]; other site 269482010887 Response regulator receiver domain; Region: Response_reg; pfam00072 269482010888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010889 active site 269482010890 phosphorylation site [posttranslational modification] 269482010891 intermolecular recognition site; other site 269482010892 dimerization interface [polypeptide binding]; other site 269482010893 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 269482010894 putative binding surface; other site 269482010895 active site 269482010896 CheY binding; Region: CheY-binding; pfam09078 269482010897 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 269482010898 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010899 ATP binding site [chemical binding]; other site 269482010900 Mg2+ binding site [ion binding]; other site 269482010901 G-X-G motif; other site 269482010902 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 269482010903 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482010904 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482010905 dimer interface [polypeptide binding]; other site 269482010906 ligand binding site [chemical binding]; other site 269482010907 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482010908 dimerization interface [polypeptide binding]; other site 269482010909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482010910 dimer interface [polypeptide binding]; other site 269482010911 putative CheW interface [polypeptide binding]; other site 269482010912 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 269482010913 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 269482010914 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482010915 CheD chemotactic sensory transduction; Region: CheD; cl00810 269482010916 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 269482010917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010918 active site 269482010919 phosphorylation site [posttranslational modification] 269482010920 intermolecular recognition site; other site 269482010921 dimerization interface [polypeptide binding]; other site 269482010922 CheB methylesterase; Region: CheB_methylest; pfam01339 269482010923 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 269482010924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010925 active site 269482010926 phosphorylation site [posttranslational modification] 269482010927 intermolecular recognition site; other site 269482010928 dimerization interface [polypeptide binding]; other site 269482010929 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 269482010930 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 269482010931 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 269482010932 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482010933 dimer interface [polypeptide binding]; other site 269482010934 Protein of unknown function (DUF805); Region: DUF805; cl01224 269482010935 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 269482010936 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 269482010937 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 269482010938 FHIPEP family; Region: FHIPEP; pfam00771 269482010939 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 269482010940 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 269482010941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010942 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482010943 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 269482010944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482010945 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482010946 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482010947 DNA binding residues [nucleotide binding] 269482010948 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 269482010949 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 269482010950 oligomerization interface [polypeptide binding]; other site 269482010951 active site 269482010952 NAD+ binding site [chemical binding]; other site 269482010953 Membrane protein of unknown function; Region: DUF360; cl00850 269482010954 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 269482010955 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 269482010956 FAD binding site [chemical binding]; other site 269482010957 amidase; Provisional; Region: PRK07869 269482010958 Amidase; Region: Amidase; cl11426 269482010959 Dienelactone hydrolase family; Region: DLH; pfam01738 269482010960 Nitronate monooxygenase; Region: NMO; pfam03060 269482010961 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482010962 FMN binding site [chemical binding]; other site 269482010963 substrate binding site [chemical binding]; other site 269482010964 putative catalytic residue [active] 269482010965 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482010966 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482010967 dimerization interface [polypeptide binding]; other site 269482010968 ligand binding site [chemical binding]; other site 269482010969 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482010970 H-NS histone family; Region: Histone_HNS; pfam00816 269482010971 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 269482010972 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 269482010973 Cation efflux family; Region: Cation_efflux; cl00316 269482010974 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482010975 Helix-turn-helix domains; Region: HTH; cl00088 269482010976 AsnC family; Region: AsnC_trans_reg; pfam01037 269482010977 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482010978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482010979 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 269482010980 Predicted methyltransferases [General function prediction only]; Region: COG0313 269482010981 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482010982 Restriction endonuclease; Region: Mrr_cat; cl00516 269482010983 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 269482010984 active site 269482010985 dimer interface [polypeptide binding]; other site 269482010986 outer membrane lipoprotein; Provisional; Region: PRK11023 269482010987 BON domain; Region: BON; cl02771 269482010988 BON domain; Region: BON; cl02771 269482010989 Cytochrome c; Region: Cytochrom_C; cl11414 269482010990 TrfA protein; Region: TrfA; pfam07042 269482010991 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482010992 MULE transposase domain; Region: MULE; pfam10551 269482010993 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010994 Helix-turn-helix domains; Region: HTH; cl00088 269482010995 Integrase core domain; Region: rve; cl01316 269482010996 HTH-like domain; Region: HTH_21; pfam13276 269482010997 Integrase core domain; Region: rve; cl01316 269482010998 Integrase core domain; Region: rve_3; cl15866 269482010999 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011000 DNA-binding interface [nucleotide binding]; DNA binding site 269482011001 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482011002 Helix-turn-helix domains; Region: HTH; cl00088 269482011003 Integrase core domain; Region: rve; cl01316 269482011004 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 269482011005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482011006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482011007 ATP binding site [chemical binding]; other site 269482011008 Helix-turn-helix domains; Region: HTH; cl00088 269482011009 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482011010 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482011011 catalytic residues [active] 269482011012 catalytic nucleophile [active] 269482011013 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482011014 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482011015 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482011016 Synaptic Site I dimer interface [polypeptide binding]; other site 269482011017 DNA binding site [nucleotide binding] 269482011018 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011019 DNA-binding interface [nucleotide binding]; DNA binding site 269482011020 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 269482011021 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 269482011022 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011023 ATP binding site [chemical binding]; other site 269482011024 putative Mg++ binding site [ion binding]; other site 269482011025 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 269482011026 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011027 MULE transposase domain; Region: MULE; pfam10551 269482011028 integrase; Provisional; Region: int; PHA02601 269482011029 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482011030 active site 269482011031 DNA binding site [nucleotide binding] 269482011032 Int/Topo IB signature motif; other site 269482011033 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 269482011034 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 269482011035 metal binding site [ion binding]; metal-binding site 269482011036 substrate binding pocket [chemical binding]; other site 269482011037 D-galactonate transporter; Region: 2A0114; TIGR00893 269482011038 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011039 putative substrate translocation pore; other site 269482011040 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 269482011041 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 269482011042 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 269482011043 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482011044 FtsX-like permease family; Region: FtsX; cl15850 269482011045 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 269482011046 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482011047 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269482011048 Walker A/P-loop; other site 269482011049 ATP binding site [chemical binding]; other site 269482011050 Q-loop/lid; other site 269482011051 ABC transporter signature motif; other site 269482011052 Walker B; other site 269482011053 D-loop; other site 269482011054 H-loop/switch region; other site 269482011055 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482011056 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482011057 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482011058 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 269482011059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482011060 LysE type translocator; Region: LysE; cl00565 269482011061 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482011063 Helix-turn-helix domains; Region: HTH; cl00088 269482011064 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482011065 dimerization interface [polypeptide binding]; other site 269482011066 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482011067 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482011068 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482011069 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 269482011070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482011071 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482011072 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 269482011073 substrate binding site [chemical binding]; other site 269482011074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482011075 active site 269482011076 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 269482011077 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482011078 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482011079 putative NAD(P) binding site [chemical binding]; other site 269482011080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482011081 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 269482011082 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 269482011083 dimer interface [polypeptide binding]; other site 269482011084 PYR/PP interface [polypeptide binding]; other site 269482011085 TPP binding site [chemical binding]; other site 269482011086 substrate binding site [chemical binding]; other site 269482011087 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 269482011088 TPP-binding site; other site 269482011089 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 269482011090 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 269482011091 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482011092 dimer interface [polypeptide binding]; other site 269482011093 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482011094 active site 269482011095 Fe binding site [ion binding]; other site 269482011096 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482011097 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482011098 putative DNA binding site [nucleotide binding]; other site 269482011099 putative Zn2+ binding site [ion binding]; other site 269482011100 AsnC family; Region: AsnC_trans_reg; pfam01037 269482011101 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482011102 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482011103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482011104 Helix-turn-helix domains; Region: HTH; cl00088 269482011105 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 269482011106 Protein of unknown function; Region: DUF3658; pfam12395 269482011107 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 269482011108 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 269482011109 FAD binding pocket [chemical binding]; other site 269482011110 FAD binding motif [chemical binding]; other site 269482011111 phosphate binding motif [ion binding]; other site 269482011112 beta-alpha-beta structure motif; other site 269482011113 NAD(p) ribose binding residues [chemical binding]; other site 269482011114 NAD binding pocket [chemical binding]; other site 269482011115 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 269482011116 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482011117 catalytic loop [active] 269482011118 iron binding site [ion binding]; other site 269482011119 Domain of unknown function DUF59; Region: DUF59; cl00941 269482011120 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 269482011121 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 269482011122 Phenylacetic acid degradation B; Region: PaaB; cl01371 269482011123 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 269482011124 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 269482011125 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 269482011126 active site 269482011127 catalytic triad [active] 269482011128 oxyanion hole [active] 269482011129 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482011130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482011131 elongation factor Tu; Reviewed; Region: PRK00049 269482011132 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 269482011133 G1 box; other site 269482011134 GEF interaction site [polypeptide binding]; other site 269482011135 GTP/Mg2+ binding site [chemical binding]; other site 269482011136 Switch I region; other site 269482011137 G2 box; other site 269482011138 G3 box; other site 269482011139 Switch II region; other site 269482011140 G4 box; other site 269482011141 G5 box; other site 269482011142 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 269482011143 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 269482011144 Antibiotic Binding Site [chemical binding]; other site 269482011145 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 269482011146 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 269482011147 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 269482011148 putative homodimer interface [polypeptide binding]; other site 269482011149 KOW motif; Region: KOW; cl00354 269482011150 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 269482011151 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 269482011152 23S rRNA interface [nucleotide binding]; other site 269482011153 L7/L12 interface [polypeptide binding]; other site 269482011154 putative thiostrepton binding site; other site 269482011155 L25 interface [polypeptide binding]; other site 269482011156 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 269482011157 mRNA/rRNA interface [nucleotide binding]; other site 269482011158 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 269482011159 23S rRNA interface [nucleotide binding]; other site 269482011160 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 269482011161 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 269482011162 peripheral dimer interface [polypeptide binding]; other site 269482011163 core dimer interface [polypeptide binding]; other site 269482011164 L10 interface [polypeptide binding]; other site 269482011165 L11 interface [polypeptide binding]; other site 269482011166 putative EF-Tu interaction site [polypeptide binding]; other site 269482011167 putative EF-G interaction site [polypeptide binding]; other site 269482011168 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 269482011169 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 269482011170 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 269482011171 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 269482011172 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 269482011173 RPB12 interaction site [polypeptide binding]; other site 269482011174 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 269482011175 RPB11 interaction site [polypeptide binding]; other site 269482011176 RPB12 interaction site [polypeptide binding]; other site 269482011177 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 269482011178 RPB3 interaction site [polypeptide binding]; other site 269482011179 RPB1 interaction site [polypeptide binding]; other site 269482011180 RPB11 interaction site [polypeptide binding]; other site 269482011181 RPB10 interaction site [polypeptide binding]; other site 269482011182 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 269482011183 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 269482011184 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 269482011185 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 269482011186 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 269482011187 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 269482011188 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 269482011189 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 269482011190 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 269482011191 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 269482011192 DNA binding site [nucleotide binding] 269482011193 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 269482011194 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 269482011195 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011196 ATP binding site [chemical binding]; other site 269482011197 putative Mg++ binding site [ion binding]; other site 269482011198 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482011199 nucleotide binding region [chemical binding]; other site 269482011200 ATP-binding site [chemical binding]; other site 269482011201 RQC domain; Region: RQC; cl09632 269482011202 HRDC domain; Region: HRDC; cl02578 269482011203 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 269482011204 S17 interaction site [polypeptide binding]; other site 269482011205 S8 interaction site; other site 269482011206 16S rRNA interaction site [nucleotide binding]; other site 269482011207 streptomycin interaction site [chemical binding]; other site 269482011208 23S rRNA interaction site [nucleotide binding]; other site 269482011209 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 269482011210 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 269482011211 elongation factor G; Reviewed; Region: PRK00007 269482011212 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 269482011213 G1 box; other site 269482011214 putative GEF interaction site [polypeptide binding]; other site 269482011215 GTP/Mg2+ binding site [chemical binding]; other site 269482011216 Switch I region; other site 269482011217 G2 box; other site 269482011218 G3 box; other site 269482011219 Switch II region; other site 269482011220 G4 box; other site 269482011221 G5 box; other site 269482011222 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 269482011223 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 269482011224 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 269482011225 elongation factor Tu; Reviewed; Region: PRK00049 269482011226 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 269482011227 G1 box; other site 269482011228 GEF interaction site [polypeptide binding]; other site 269482011229 GTP/Mg2+ binding site [chemical binding]; other site 269482011230 Switch I region; other site 269482011231 G2 box; other site 269482011232 G3 box; other site 269482011233 Switch II region; other site 269482011234 G4 box; other site 269482011235 G5 box; other site 269482011236 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 269482011237 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 269482011238 Antibiotic Binding Site [chemical binding]; other site 269482011239 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 269482011240 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 269482011241 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 269482011242 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 269482011243 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 269482011244 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 269482011245 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 269482011246 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 269482011247 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 269482011248 putative translocon binding site; other site 269482011249 protein-rRNA interface [nucleotide binding]; other site 269482011250 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 269482011251 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 269482011252 G-X-X-G motif; other site 269482011253 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 269482011254 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 269482011255 23S rRNA interface [nucleotide binding]; other site 269482011256 5S rRNA interface [nucleotide binding]; other site 269482011257 putative antibiotic binding site [chemical binding]; other site 269482011258 L25 interface [polypeptide binding]; other site 269482011259 L27 interface [polypeptide binding]; other site 269482011260 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 269482011261 23S rRNA interface [nucleotide binding]; other site 269482011262 putative translocon interaction site; other site 269482011263 signal recognition particle (SRP54) interaction site; other site 269482011264 L23 interface [polypeptide binding]; other site 269482011265 trigger factor interaction site; other site 269482011266 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 269482011267 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 269482011268 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 269482011269 KOW motif; Region: KOW; cl00354 269482011270 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 269482011271 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 269482011272 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 269482011273 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 269482011274 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 269482011275 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 269482011276 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269482011277 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269482011278 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 269482011279 5S rRNA interface [nucleotide binding]; other site 269482011280 L27 interface [polypeptide binding]; other site 269482011281 23S rRNA interface [nucleotide binding]; other site 269482011282 L5 interface [polypeptide binding]; other site 269482011283 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 269482011284 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 269482011285 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 269482011286 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 269482011287 23S rRNA binding site [nucleotide binding]; other site 269482011288 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 269482011289 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 269482011290 SecY translocase; Region: SecY; pfam00344 269482011291 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 269482011292 rRNA binding site [nucleotide binding]; other site 269482011293 predicted 30S ribosome binding site; other site 269482011294 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 269482011295 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 269482011296 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 269482011297 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 269482011298 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 269482011299 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 269482011300 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482011301 RNA binding surface [nucleotide binding]; other site 269482011302 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 269482011303 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 269482011304 alphaNTD homodimer interface [polypeptide binding]; other site 269482011305 alphaNTD - beta interaction site [polypeptide binding]; other site 269482011306 alphaNTD - beta' interaction site [polypeptide binding]; other site 269482011307 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 269482011308 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 269482011309 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 269482011310 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 269482011311 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 269482011312 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482011313 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 269482011314 DsbD alpha interface [polypeptide binding]; other site 269482011315 catalytic residues [active] 269482011316 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 269482011317 dimer interface [polypeptide binding]; other site 269482011318 active site 269482011319 aspartate-rich active site metal binding site; other site 269482011320 allosteric magnesium binding site [ion binding]; other site 269482011321 Schiff base residues; other site 269482011322 Predicted GTPase [General function prediction only]; Region: COG0218 269482011323 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 269482011324 G1 box; other site 269482011325 GTP/Mg2+ binding site [chemical binding]; other site 269482011326 Switch I region; other site 269482011327 G2 box; other site 269482011328 G3 box; other site 269482011329 Switch II region; other site 269482011330 G4 box; other site 269482011331 G5 box; other site 269482011332 Cytochrome c; Region: Cytochrom_C; cl11414 269482011333 Cytochrome c; Region: Cytochrom_C; cl11414 269482011334 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 269482011335 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 269482011336 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482011337 TMAO/DMSO reductase; Reviewed; Region: PRK05363 269482011338 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482011339 Moco binding site; other site 269482011340 metal coordination site [ion binding]; other site 269482011341 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 269482011342 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 269482011343 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 269482011344 putative iron binding site [ion binding]; other site 269482011345 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 269482011346 Transglycosylase; Region: Transgly; cl07896 269482011347 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482011348 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 269482011349 Secretin and TonB N terminus short domain; Region: STN; cl06624 269482011350 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482011351 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482011352 shikimate kinase; Reviewed; Region: aroK; PRK00131 269482011353 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 269482011354 ADP binding site [chemical binding]; other site 269482011355 magnesium binding site [ion binding]; other site 269482011356 putative shikimate binding site; other site 269482011357 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 269482011358 active site 269482011359 dimer interface [polypeptide binding]; other site 269482011360 metal binding site [ion binding]; metal-binding site 269482011361 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 269482011362 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482011363 Zn2+ binding site [ion binding]; other site 269482011364 Mg2+ binding site [ion binding]; other site 269482011365 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 269482011366 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482011367 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482011368 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 269482011369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482011370 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482011371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482011372 dimer interface [polypeptide binding]; other site 269482011373 conserved gate region; other site 269482011374 putative PBP binding loops; other site 269482011375 ABC-ATPase subunit interface; other site 269482011376 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269482011377 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 269482011378 Walker A/P-loop; other site 269482011379 ATP binding site [chemical binding]; other site 269482011380 Q-loop/lid; other site 269482011381 ABC transporter signature motif; other site 269482011382 Walker B; other site 269482011383 D-loop; other site 269482011384 H-loop/switch region; other site 269482011385 TOBE domain; Region: TOBE_2; cl01440 269482011386 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 269482011387 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 269482011388 putative active site [active] 269482011389 catalytic site [active] 269482011390 putative metal binding site [ion binding]; other site 269482011391 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482011392 Transposase IS200 like; Region: Y1_Tnp; cl00848 269482011393 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 269482011394 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 269482011395 active site 269482011396 dimer interface [polypeptide binding]; other site 269482011397 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 269482011398 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 269482011399 active site 269482011400 FMN binding site [chemical binding]; other site 269482011401 substrate binding site [chemical binding]; other site 269482011402 3Fe-4S cluster binding site [ion binding]; other site 269482011403 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 269482011404 domain interface; other site 269482011405 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 269482011406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482011407 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 269482011408 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 269482011409 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482011410 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 269482011411 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 269482011412 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 269482011413 thiS-thiF/thiG interaction site; other site 269482011414 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 269482011415 ThiS interaction site; other site 269482011416 putative active site [active] 269482011417 tetramer interface [polypeptide binding]; other site 269482011418 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 269482011419 thiamine phosphate binding site [chemical binding]; other site 269482011420 active site 269482011421 pyrophosphate binding site [ion binding]; other site 269482011422 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 269482011423 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 269482011424 Walker A/P-loop; other site 269482011425 ATP binding site [chemical binding]; other site 269482011426 Q-loop/lid; other site 269482011427 ABC transporter signature motif; other site 269482011428 Walker B; other site 269482011429 D-loop; other site 269482011430 H-loop/switch region; other site 269482011431 Permease; Region: Permease; cl00510 269482011432 mce related protein; Region: MCE; pfam02470 269482011433 VacJ like lipoprotein; Region: VacJ; cl01073 269482011434 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 269482011435 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 269482011436 anti sigma factor interaction site; other site 269482011437 regulatory phosphorylation site [posttranslational modification]; other site 269482011438 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269482011439 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 269482011440 Walker A/P-loop; other site 269482011441 ATP binding site [chemical binding]; other site 269482011442 Q-loop/lid; other site 269482011443 ABC transporter signature motif; other site 269482011444 Walker B; other site 269482011445 D-loop; other site 269482011446 H-loop/switch region; other site 269482011447 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482011448 BolA-like protein; Region: BolA; cl00386 269482011449 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 269482011450 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 269482011451 hinge; other site 269482011452 active site 269482011453 ATP phosphoribosyltransferase; Region: HisG; cl15266 269482011454 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 269482011455 histidinol dehydrogenase; Region: hisD; TIGR00069 269482011456 NAD binding site [chemical binding]; other site 269482011457 dimerization interface [polypeptide binding]; other site 269482011458 product binding site; other site 269482011459 substrate binding site [chemical binding]; other site 269482011460 zinc binding site [ion binding]; other site 269482011461 catalytic residues [active] 269482011462 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 269482011463 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482011464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482011465 homodimer interface [polypeptide binding]; other site 269482011466 catalytic residue [active] 269482011467 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 269482011468 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 269482011469 putative active site pocket [active] 269482011470 4-fold oligomerization interface [polypeptide binding]; other site 269482011471 metal binding residues [ion binding]; metal-binding site 269482011472 3-fold/trimer interface [polypeptide binding]; other site 269482011473 MarC family integral membrane protein; Region: MarC; cl00919 269482011474 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 269482011475 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 269482011476 putative active site [active] 269482011477 oxyanion strand; other site 269482011478 catalytic triad [active] 269482011479 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 269482011480 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 269482011481 catalytic residues [active] 269482011482 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 269482011483 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 269482011484 substrate binding site [chemical binding]; other site 269482011485 glutamase interaction surface [polypeptide binding]; other site 269482011486 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 269482011487 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 269482011488 metal binding site [ion binding]; metal-binding site 269482011489 Predicted membrane protein [Function unknown]; Region: COG3671 269482011490 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 269482011491 nucleotide binding site/active site [active] 269482011492 HIT family signature motif; other site 269482011493 catalytic residue [active] 269482011494 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 269482011495 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 269482011496 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 269482011497 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 269482011498 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482011499 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482011500 protein binding site [polypeptide binding]; other site 269482011501 Uncharacterized conserved protein [Function unknown]; Region: COG0327 269482011502 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 269482011503 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 269482011504 [2Fe-2S] cluster binding site [ion binding]; other site 269482011505 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 269482011506 Qi binding site; other site 269482011507 intrachain domain interface; other site 269482011508 interchain domain interface [polypeptide binding]; other site 269482011509 cytochrome b; Provisional; Region: CYTB; MTH00145 269482011510 heme bH binding site [chemical binding]; other site 269482011511 heme bL binding site [chemical binding]; other site 269482011512 Qo binding site; other site 269482011513 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 269482011514 interchain domain interface [polypeptide binding]; other site 269482011515 intrachain domain interface; other site 269482011516 Qi binding site; other site 269482011517 Qo binding site; other site 269482011518 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 269482011519 stringent starvation protein A; Provisional; Region: sspA; PRK09481 269482011520 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 269482011521 C-terminal domain interface [polypeptide binding]; other site 269482011522 putative GSH binding site (G-site) [chemical binding]; other site 269482011523 dimer interface [polypeptide binding]; other site 269482011524 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 269482011525 dimer interface [polypeptide binding]; other site 269482011526 N-terminal domain interface [polypeptide binding]; other site 269482011527 Stringent starvation protein B; Region: SspB; cl01120 269482011528 integrase; Provisional; Region: PRK09692 269482011529 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 269482011530 active site 269482011531 Int/Topo IB signature motif; other site 269482011532 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482011533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269482011534 Domain of unknown function (DUF927); Region: DUF927; cl12098 269482011535 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482011536 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011537 MULE transposase domain; Region: MULE; pfam10551 269482011538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482011539 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482011540 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482011541 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482011542 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482011543 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 269482011544 PAAR motif; Region: PAAR_motif; cl15808 269482011545 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482011546 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482011547 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482011548 catalytic residues [active] 269482011549 catalytic nucleophile [active] 269482011550 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482011551 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482011552 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482011553 Synaptic Site I dimer interface [polypeptide binding]; other site 269482011554 DNA binding site [nucleotide binding] 269482011555 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011556 DNA-binding interface [nucleotide binding]; DNA binding site 269482011557 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482011558 non-specific DNA binding site [nucleotide binding]; other site 269482011559 salt bridge; other site 269482011560 sequence-specific DNA binding site [nucleotide binding]; other site 269482011561 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482011562 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482011563 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482011564 substrate binding pocket [chemical binding]; other site 269482011565 membrane-bound complex binding site; other site 269482011566 hinge residues; other site 269482011567 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 269482011568 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482011569 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482011570 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482011571 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482011572 RHS Repeat; Region: RHS_repeat; cl11982 269482011573 RHS Repeat; Region: RHS_repeat; cl11982 269482011574 RHS Repeat; Region: RHS_repeat; cl11982 269482011575 RHS Repeat; Region: RHS_repeat; cl11982 269482011576 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 269482011577 RHS Repeat; Region: RHS_repeat; cl11982 269482011578 RHS Repeat; Region: RHS_repeat; cl11982 269482011579 RHS Repeat; Region: RHS_repeat; cl11982 269482011580 RHS Repeat; Region: RHS_repeat; cl11982 269482011581 RHS Repeat; Region: RHS_repeat; cl11982 269482011582 RHS protein; Region: RHS; pfam03527 269482011583 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 269482011584 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 269482011585 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011586 MULE transposase domain; Region: MULE; pfam10551 269482011587 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 269482011588 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 269482011589 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482011590 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 269482011591 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 269482011592 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482011593 TPR motif; other site 269482011594 binding surface 269482011595 Protein of unknown function (DUF770); Region: DUF770; cl01402 269482011596 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 269482011597 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482011598 Protein of unknown function (DUF796); Region: DUF796; cl01226 269482011599 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 269482011600 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482011601 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482011602 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 269482011603 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 269482011604 Clp amino terminal domain; Region: Clp_N; pfam02861 269482011605 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482011606 Walker A motif; other site 269482011607 ATP binding site [chemical binding]; other site 269482011608 Walker B motif; other site 269482011609 arginine finger; other site 269482011610 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482011611 Walker A motif; other site 269482011612 ATP binding site [chemical binding]; other site 269482011613 Walker B motif; other site 269482011614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482011615 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 269482011616 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 269482011617 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 269482011618 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482011619 ligand binding site [chemical binding]; other site 269482011620 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 269482011621 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 269482011622 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482011623 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482011624 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482011625 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 269482011626 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 269482011627 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 269482011628 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 269482011629 Peptidase family M1; Region: Peptidase_M1; pfam01433 269482011630 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269482011631 Zn binding site [ion binding]; other site 269482011632 Late embryogenesis abundant protein; Region: LEA_2; cl12118 269482011633 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 269482011634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482011635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482011636 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 269482011637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011638 putative substrate translocation pore; other site 269482011639 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482011640 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 269482011641 putative FMN binding site [chemical binding]; other site 269482011642 putative chaperone; Provisional; Region: PRK11678 269482011643 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 269482011644 DNA-binding site [nucleotide binding]; DNA binding site 269482011645 RNA-binding motif; other site 269482011646 amino acid transporter; Region: 2A0306; TIGR00909 269482011647 Spore germination protein; Region: Spore_permease; cl15802 269482011648 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 269482011649 putative active site [active] 269482011650 metal binding site [ion binding]; metal-binding site 269482011651 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 269482011652 Flavoprotein; Region: Flavoprotein; cl08021 269482011653 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 269482011654 putative GSH binding site [chemical binding]; other site 269482011655 catalytic residues [active] 269482011656 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 269482011657 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482011658 S-adenosylmethionine binding site [chemical binding]; other site 269482011659 peptide chain release factor 1; Validated; Region: prfA; PRK00591 269482011660 RF-1 domain; Region: RF-1; cl02875 269482011661 RF-1 domain; Region: RF-1; cl02875 269482011662 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 269482011663 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 269482011664 tRNA; other site 269482011665 putative tRNA binding site [nucleotide binding]; other site 269482011666 putative NADP binding site [chemical binding]; other site 269482011667 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 269482011668 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482011669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011670 active site 269482011671 phosphorylation site [posttranslational modification] 269482011672 intermolecular recognition site; other site 269482011673 dimerization interface [polypeptide binding]; other site 269482011674 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482011675 DNA binding site [nucleotide binding] 269482011676 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482011677 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482011678 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 269482011679 active site 269482011680 Isochorismatase family; Region: Isochorismatase; pfam00857 269482011681 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 269482011682 catalytic triad [active] 269482011683 conserved cis-peptide bond; other site 269482011684 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 269482011685 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482011686 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 269482011687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482011688 Walker A/P-loop; other site 269482011689 ATP binding site [chemical binding]; other site 269482011690 Q-loop/lid; other site 269482011691 ABC transporter signature motif; other site 269482011692 Walker B; other site 269482011693 D-loop; other site 269482011694 H-loop/switch region; other site 269482011695 ABC transporter; Region: ABC_tran_2; pfam12848 269482011696 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482011697 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 269482011698 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 269482011699 GTP-binding protein YchF; Reviewed; Region: PRK09601 269482011700 YchF GTPase; Region: YchF; cd01900 269482011701 G1 box; other site 269482011702 GTP/Mg2+ binding site [chemical binding]; other site 269482011703 Switch I region; other site 269482011704 G2 box; other site 269482011705 Switch II region; other site 269482011706 G3 box; other site 269482011707 G4 box; other site 269482011708 G5 box; other site 269482011709 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 269482011710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482011711 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 269482011712 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 269482011713 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482011714 dimerization domain [polypeptide binding]; other site 269482011715 dimer interface [polypeptide binding]; other site 269482011716 catalytic residues [active] 269482011717 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 269482011718 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269482011719 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 269482011720 protein binding site [polypeptide binding]; other site 269482011721 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482011722 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 269482011723 ligand binding site [chemical binding]; other site 269482011724 active site 269482011725 UGI interface [polypeptide binding]; other site 269482011726 catalytic site [active] 269482011727 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 269482011728 putative active site [active] 269482011729 putative metal binding residues [ion binding]; other site 269482011730 signature motif; other site 269482011731 putative triphosphate binding site [ion binding]; other site 269482011732 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 269482011733 active site 269482011734 ribulose/triose binding site [chemical binding]; other site 269482011735 phosphate binding site [ion binding]; other site 269482011736 substrate (anthranilate) binding pocket [chemical binding]; other site 269482011737 product (indole) binding pocket [chemical binding]; other site 269482011738 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 269482011739 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269482011740 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 269482011741 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 269482011742 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 269482011743 glutamine binding [chemical binding]; other site 269482011744 catalytic triad [active] 269482011745 anthranilate synthase component I; Provisional; Region: PRK13565 269482011746 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 269482011747 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269482011748 phosphoglycolate phosphatase; Provisional; Region: PRK13222 269482011749 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482011750 motif II; other site 269482011751 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 269482011752 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 269482011753 substrate binding site [chemical binding]; other site 269482011754 hexamer interface [polypeptide binding]; other site 269482011755 metal binding site [ion binding]; metal-binding site 269482011756 Protein of unknown function (DUF525); Region: DUF525; cl01119 269482011757 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 269482011758 MltA specific insert domain; Region: MltA; cl08398 269482011759 3D domain; Region: 3D; cl01439 269482011760 AMP-binding enzyme; Region: AMP-binding; cl15778 269482011761 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 269482011762 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482011763 CoenzymeA binding site [chemical binding]; other site 269482011764 subunit interaction site [polypeptide binding]; other site 269482011765 PHB binding site; other site 269482011766 enoyl-CoA hydratase; Provisional; Region: PRK08140 269482011767 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482011768 substrate binding site [chemical binding]; other site 269482011769 oxyanion hole (OAH) forming residues; other site 269482011770 trimer interface [polypeptide binding]; other site 269482011771 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 269482011772 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482011773 dimer interface [polypeptide binding]; other site 269482011774 active site 269482011775 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482011776 NAD(P) binding site [chemical binding]; other site 269482011777 catalytic residues [active] 269482011778 enoyl-CoA hydratase; Provisional; Region: PRK05862 269482011779 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482011780 substrate binding site [chemical binding]; other site 269482011781 oxyanion hole (OAH) forming residues; other site 269482011782 trimer interface [polypeptide binding]; other site 269482011783 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 269482011784 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 269482011785 putative [4Fe-4S] binding site [ion binding]; other site 269482011786 putative molybdopterin cofactor binding site [chemical binding]; other site 269482011787 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 269482011788 putative molybdopterin cofactor binding site; other site 269482011789 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 269482011790 AMP-binding enzyme; Region: AMP-binding; cl15778 269482011791 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482011792 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482011793 trimer interface [polypeptide binding]; other site 269482011794 eyelet of channel; other site 269482011795 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 269482011796 diiron binding motif [ion binding]; other site 269482011797 cell division protein MraZ; Reviewed; Region: PRK00326 269482011798 MraZ protein; Region: MraZ; pfam02381 269482011799 MraZ protein; Region: MraZ; pfam02381 269482011800 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 269482011801 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482011802 Septum formation initiator; Region: DivIC; cl11433 269482011803 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 269482011804 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482011805 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482011806 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 269482011807 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482011808 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482011809 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482011810 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 269482011811 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482011812 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482011813 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 269482011814 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 269482011815 Mg++ binding site [ion binding]; other site 269482011816 putative catalytic motif [active] 269482011817 putative substrate binding site [chemical binding]; other site 269482011818 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 269482011819 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482011820 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482011821 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 269482011822 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 269482011823 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 269482011824 active site 269482011825 homodimer interface [polypeptide binding]; other site 269482011826 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 269482011827 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482011828 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482011829 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482011830 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 269482011831 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 269482011832 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482011833 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 269482011834 Cell division protein FtsQ; Region: FtsQ; pfam03799 269482011835 cell division protein FtsA; Region: ftsA; TIGR01174 269482011836 Cell division protein FtsA; Region: FtsA; cl11496 269482011837 Cell division protein FtsA; Region: FtsA; cl11496 269482011838 cell division protein FtsZ; Validated; Region: PRK09330 269482011839 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 269482011840 nucleotide binding site [chemical binding]; other site 269482011841 SulA interaction site; other site 269482011842 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 269482011843 catalytic triad [active] 269482011844 dimer interface [polypeptide binding]; other site 269482011845 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 269482011846 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 269482011847 Protein of unknown function (DUF721); Region: DUF721; cl02324 269482011848 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 269482011849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482011850 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 269482011851 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482011852 nucleotide binding region [chemical binding]; other site 269482011853 ATP-binding site [chemical binding]; other site 269482011854 SEC-C motif; Region: SEC-C; pfam02810 269482011855 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 269482011856 heterotetramer interface [polypeptide binding]; other site 269482011857 active site pocket [active] 269482011858 cleavage site 269482011859 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 269482011860 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482011861 Walker A motif; other site 269482011862 ATP binding site [chemical binding]; other site 269482011863 Walker B motif; other site 269482011864 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 269482011865 active site 269482011866 8-oxo-dGMP binding site [chemical binding]; other site 269482011867 nudix motif; other site 269482011868 metal binding site [ion binding]; metal-binding site 269482011869 Domain of unknown function (DUF329); Region: DUF329; cl01144 269482011870 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 269482011871 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 269482011872 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 269482011873 CoA-binding site [chemical binding]; other site 269482011874 ATP-binding [chemical binding]; other site 269482011875 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 269482011876 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 269482011877 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 269482011878 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482011879 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482011880 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482011881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482011882 Walker A motif; other site 269482011883 ATP binding site [chemical binding]; other site 269482011884 Walker B motif; other site 269482011885 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 269482011886 Domain of unknown function DUF21; Region: DUF21; pfam01595 269482011887 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482011888 Transporter associated domain; Region: CorC_HlyC; cl08393 269482011889 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482011890 binding surface 269482011891 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 269482011892 TPR motif; other site 269482011893 GSCFA family; Region: GSCFA; pfam08885 269482011894 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 269482011895 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269482011896 substrate binding pocket [chemical binding]; other site 269482011897 chain length determination region; other site 269482011898 substrate-Mg2+ binding site; other site 269482011899 catalytic residues [active] 269482011900 aspartate-rich region 1; other site 269482011901 active site lid residues [active] 269482011902 aspartate-rich region 2; other site 269482011903 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 269482011904 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 269482011905 GTPase CgtA; Reviewed; Region: obgE; PRK12298 269482011906 GTP1/OBG; Region: GTP1_OBG; pfam01018 269482011907 Obg GTPase; Region: Obg; cd01898 269482011908 G1 box; other site 269482011909 GTP/Mg2+ binding site [chemical binding]; other site 269482011910 Switch I region; other site 269482011911 G2 box; other site 269482011912 G3 box; other site 269482011913 Switch II region; other site 269482011914 G4 box; other site 269482011915 G5 box; other site 269482011916 gamma-glutamyl kinase; Provisional; Region: PRK05429 269482011917 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 269482011918 nucleotide binding site [chemical binding]; other site 269482011919 homotetrameric interface [polypeptide binding]; other site 269482011920 putative phosphate binding site [ion binding]; other site 269482011921 putative allosteric binding site; other site 269482011922 PUA domain; Region: PUA; cl00607 269482011923 CNP1-like family; Region: CNP1; pfam08750 269482011924 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 269482011925 putative active site [active] 269482011926 Ap4A binding site [chemical binding]; other site 269482011927 nudix motif; other site 269482011928 putative metal binding site [ion binding]; other site 269482011929 prolyl-tRNA synthetase; Provisional; Region: PRK09194 269482011930 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 269482011931 dimer interface [polypeptide binding]; other site 269482011932 motif 1; other site 269482011933 active site 269482011934 motif 2; other site 269482011935 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 269482011936 putative deacylase active site [active] 269482011937 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 269482011938 active site 269482011939 motif 3; other site 269482011940 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 269482011941 anticodon binding site; other site 269482011942 MarC family integral membrane protein; Region: MarC; cl00919 269482011943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482011944 active site 269482011945 signal recognition particle protein; Provisional; Region: PRK10867 269482011946 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 269482011947 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 269482011948 P loop; other site 269482011949 GTP binding site [chemical binding]; other site 269482011950 Signal peptide binding domain; Region: SRP_SPB; pfam02978 269482011951 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482011952 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 269482011953 amidase catalytic site [active] 269482011954 Zn binding residues [ion binding]; other site 269482011955 substrate binding site [chemical binding]; other site 269482011956 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 269482011957 ATP cone domain; Region: ATP-cone; pfam03477 269482011958 Class I ribonucleotide reductase; Region: RNR_I; cd01679 269482011959 active site 269482011960 dimer interface [polypeptide binding]; other site 269482011961 catalytic residues [active] 269482011962 effector binding site; other site 269482011963 R2 peptide binding site; other site 269482011964 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 269482011965 dimer interface [polypeptide binding]; other site 269482011966 putative radical transfer pathway; other site 269482011967 diiron center [ion binding]; other site 269482011968 tyrosyl radical; other site 269482011969 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482011970 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 269482011971 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482011972 substrate binding site [chemical binding]; other site 269482011973 ATP binding site [chemical binding]; other site 269482011974 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 269482011975 dimer interface [polypeptide binding]; other site 269482011976 catalytic triad [active] 269482011977 peroxidatic and resolving cysteines [active] 269482011978 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 269482011979 ribonuclease E; Reviewed; Region: rne; PRK10811 269482011980 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 269482011981 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 269482011982 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482011983 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482011984 S-adenosylmethionine binding site [chemical binding]; other site 269482011985 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 269482011986 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482011987 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482011988 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 269482011989 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 269482011990 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482011991 carboxyltransferase (CT) interaction site; other site 269482011992 biotinylation site [posttranslational modification]; other site 269482011993 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 269482011994 active site 269482011995 trimer interface [polypeptide binding]; other site 269482011996 dimer interface [polypeptide binding]; other site 269482011997 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482011998 catalytic residues [active] 269482011999 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 269482012000 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482012001 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012002 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012003 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 269482012004 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 269482012005 RNB domain; Region: RNB; pfam00773 269482012006 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 269482012007 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482012008 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482012009 shikimate binding site; other site 269482012010 NAD(P) binding site [chemical binding]; other site 269482012011 Transglycosylase; Region: Transgly; cl07896 269482012012 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482012013 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482012014 EF-hand domain pair; Region: EF_hand_5; pfam13499 269482012015 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482012016 Helix-turn-helix domains; Region: HTH; cl00088 269482012017 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482012018 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 269482012019 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 269482012020 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 269482012021 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 269482012022 active site 269482012023 intersubunit interface [polypeptide binding]; other site 269482012024 catalytic residue [active] 269482012025 short chain dehydrogenase; Provisional; Region: PRK07063 269482012026 classical (c) SDRs; Region: SDR_c; cd05233 269482012027 NAD(P) binding site [chemical binding]; other site 269482012028 active site 269482012029 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 269482012030 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 269482012031 ligand binding site [chemical binding]; other site 269482012032 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 269482012033 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482012034 Walker A/P-loop; other site 269482012035 ATP binding site [chemical binding]; other site 269482012036 Q-loop/lid; other site 269482012037 ABC transporter signature motif; other site 269482012038 Walker B; other site 269482012039 D-loop; other site 269482012040 H-loop/switch region; other site 269482012041 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482012042 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482012043 TM-ABC transporter signature motif; other site 269482012044 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482012045 classical (c) SDRs; Region: SDR_c; cd05233 269482012046 NAD(P) binding site [chemical binding]; other site 269482012047 active site 269482012048 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 269482012049 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 269482012050 active site 269482012051 catalytic residues [active] 269482012052 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 269482012053 active site 269482012054 dimer interface [polypeptide binding]; other site 269482012055 Competence-damaged protein; Region: CinA; cl00666 269482012056 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 269482012057 tetramer interfaces [polypeptide binding]; other site 269482012058 binuclear metal-binding site [ion binding]; other site 269482012059 thiamine monophosphate kinase; Provisional; Region: PRK05731 269482012060 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 269482012061 ATP binding site [chemical binding]; other site 269482012062 dimerization interface [polypeptide binding]; other site 269482012063 malic enzyme; Reviewed; Region: PRK12862 269482012064 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482012065 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482012066 putative NAD(P) binding site [chemical binding]; other site 269482012067 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482012068 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 269482012069 active site 269482012070 barstar interaction site; other site 269482012071 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 269482012072 putative RNAase interaction site [polypeptide binding]; other site 269482012073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 269482012074 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 269482012075 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 269482012076 putative dimer interface [polypeptide binding]; other site 269482012077 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482012078 spermidine synthase; Provisional; Region: PRK00811 269482012079 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482012080 transketolase; Reviewed; Region: PRK12753 269482012081 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 269482012082 TPP-binding site [chemical binding]; other site 269482012083 dimer interface [polypeptide binding]; other site 269482012084 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 269482012085 PYR/PP interface [polypeptide binding]; other site 269482012086 dimer interface [polypeptide binding]; other site 269482012087 TPP binding site [chemical binding]; other site 269482012088 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482012089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012090 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 269482012091 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 269482012092 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482012093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482012094 DNA-binding site [nucleotide binding]; DNA binding site 269482012095 FCD domain; Region: FCD; cl11656 269482012096 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 269482012097 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482012098 allantoicase; Provisional; Region: PRK13257 269482012099 Allantoicase repeat; Region: Allantoicase; pfam03561 269482012100 Allantoicase repeat; Region: Allantoicase; pfam03561 269482012101 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 269482012102 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 269482012103 ferric uptake regulator; Provisional; Region: fur; PRK09462 269482012104 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269482012105 metal binding site 2 [ion binding]; metal-binding site 269482012106 putative DNA binding helix; other site 269482012107 metal binding site 1 [ion binding]; metal-binding site 269482012108 dimer interface [polypeptide binding]; other site 269482012109 structural Zn2+ binding site [ion binding]; other site 269482012110 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 269482012111 dihydrodipicolinate reductase; Provisional; Region: PRK00048 269482012112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012113 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 269482012114 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482012115 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482012116 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 269482012117 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 269482012118 HIGH motif; other site 269482012119 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 269482012120 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482012121 active site 269482012122 KMSKS motif; other site 269482012123 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 269482012124 tRNA binding surface [nucleotide binding]; other site 269482012125 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 269482012126 Lipopolysaccharide-assembly; Region: LptE; cl01125 269482012127 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 269482012128 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 269482012129 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 269482012130 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 269482012131 putative catalytic cysteine [active] 269482012132 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 269482012133 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 269482012134 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482012135 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482012136 putative active site [active] 269482012137 Dehydratase family; Region: ILVD_EDD; cl00340 269482012138 6-phosphogluconate dehydratase; Region: edd; TIGR01196 269482012139 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 269482012140 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 269482012141 active site 269482012142 intersubunit interface [polypeptide binding]; other site 269482012143 catalytic residue [active] 269482012144 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 269482012145 GntP family permease; Region: GntP_permease; pfam02447 269482012146 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 269482012147 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 269482012148 ATP-binding site [chemical binding]; other site 269482012149 Gluconate-6-phosphate binding site [chemical binding]; other site 269482012150 adenylosuccinate lyase; Provisional; Region: PRK09285 269482012151 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 269482012152 tetramer interface [polypeptide binding]; other site 269482012153 active site 269482012154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012155 Helix-turn-helix domains; Region: HTH; cl00088 269482012156 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482012157 dimerization interface [polypeptide binding]; other site 269482012158 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 269482012159 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 269482012160 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 269482012161 NAD(P) binding site [chemical binding]; other site 269482012162 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 269482012163 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482012164 substrate binding pocket [chemical binding]; other site 269482012165 membrane-bound complex binding site; other site 269482012166 hinge residues; other site 269482012167 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482012168 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012169 dimer interface [polypeptide binding]; other site 269482012170 conserved gate region; other site 269482012171 putative PBP binding loops; other site 269482012172 ABC-ATPase subunit interface; other site 269482012173 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482012174 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012175 dimer interface [polypeptide binding]; other site 269482012176 conserved gate region; other site 269482012177 putative PBP binding loops; other site 269482012178 ABC-ATPase subunit interface; other site 269482012179 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482012180 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482012181 Walker A/P-loop; other site 269482012182 ATP binding site [chemical binding]; other site 269482012183 Q-loop/lid; other site 269482012184 ABC transporter signature motif; other site 269482012185 Walker B; other site 269482012186 D-loop; other site 269482012187 H-loop/switch region; other site 269482012188 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 269482012189 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 269482012190 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 269482012191 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482012192 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 269482012193 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 269482012194 putative active site [active] 269482012195 putative dimer interface [polypeptide binding]; other site 269482012196 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 269482012197 active site 269482012198 substrate binding pocket [chemical binding]; other site 269482012199 dimer interface [polypeptide binding]; other site 269482012200 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 269482012201 OsmC-like protein; Region: OsmC; cl00767 269482012202 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 269482012203 23S rRNA interface [nucleotide binding]; other site 269482012204 L3 interface [polypeptide binding]; other site 269482012205 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 269482012206 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482012207 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 269482012208 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 269482012209 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 269482012210 active site 269482012211 HIGH motif; other site 269482012212 dimer interface [polypeptide binding]; other site 269482012213 KMSKS motif; other site 269482012214 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482012215 RNA binding surface [nucleotide binding]; other site 269482012216 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 269482012217 putative active site [active] 269482012218 dimerization interface [polypeptide binding]; other site 269482012219 putative tRNAtyr binding site [nucleotide binding]; other site 269482012220 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482012221 catalytic core [active] 269482012222 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 269482012223 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 269482012224 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012225 Walker A motif; other site 269482012226 ATP binding site [chemical binding]; other site 269482012227 Walker B motif; other site 269482012228 arginine finger; other site 269482012229 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 269482012230 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 269482012231 RuvA N terminal domain; Region: RuvA_N; pfam01330 269482012232 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 269482012233 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 269482012234 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 269482012235 active site 269482012236 putative DNA-binding cleft [nucleotide binding]; other site 269482012237 dimer interface [polypeptide binding]; other site 269482012238 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 269482012239 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 269482012240 purine monophosphate binding site [chemical binding]; other site 269482012241 dimer interface [polypeptide binding]; other site 269482012242 putative catalytic residues [active] 269482012243 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 269482012244 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 269482012245 Helix-turn-helix domains; Region: HTH; cl00088 269482012246 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 269482012247 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269482012248 FMN binding site [chemical binding]; other site 269482012249 active site 269482012250 catalytic residues [active] 269482012251 substrate binding site [chemical binding]; other site 269482012252 hypothetical protein; Provisional; Region: PRK06996 269482012253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012254 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 269482012255 proline aminopeptidase P II; Provisional; Region: PRK10879 269482012256 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 269482012257 active site 269482012258 putative glutathione S-transferase; Provisional; Region: PRK10357 269482012259 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 269482012260 putative C-terminal domain interface [polypeptide binding]; other site 269482012261 putative GSH binding site (G-site) [chemical binding]; other site 269482012262 putative dimer interface [polypeptide binding]; other site 269482012263 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 269482012264 dimer interface [polypeptide binding]; other site 269482012265 N-terminal domain interface [polypeptide binding]; other site 269482012266 putative substrate binding pocket (H-site) [chemical binding]; other site 269482012267 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 269482012268 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 269482012269 active site 269482012270 FMN binding site [chemical binding]; other site 269482012271 substrate binding site [chemical binding]; other site 269482012272 3Fe-4S cluster binding site [ion binding]; other site 269482012273 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 269482012274 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 269482012275 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 269482012276 nudix motif; other site 269482012277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012278 Helix-turn-helix domains; Region: HTH; cl00088 269482012279 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482012280 dimerization interface [polypeptide binding]; other site 269482012281 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 269482012282 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482012283 putative active site [active] 269482012284 catalytic triad [active] 269482012285 putative dimer interface [polypeptide binding]; other site 269482012286 Helix-turn-helix domains; Region: HTH; cl00088 269482012287 WYL domain; Region: WYL; cl14852 269482012288 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 269482012289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482012290 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 269482012291 THUMP domain; Region: THUMP; cl12076 269482012292 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482012293 Site-specific recombinase; Region: SpecificRecomb; cl15411 269482012294 Protein of unknown function (DUF330); Region: DUF330; cl01135 269482012295 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 269482012296 mce related protein; Region: MCE; pfam02470 269482012297 mce related protein; Region: MCE; pfam02470 269482012298 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482012299 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482012300 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482012301 YceI-like domain; Region: YceI; cl01001 269482012302 YceI-like domain; Region: YceI; cl01001 269482012303 citrate-proton symporter; Provisional; Region: PRK15075 269482012304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012305 putative substrate translocation pore; other site 269482012306 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 269482012307 protein binding site [polypeptide binding]; other site 269482012308 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269482012309 Active site serine [active] 269482012310 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 269482012311 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 269482012312 Protein export membrane protein; Region: SecD_SecF; cl14618 269482012313 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 269482012314 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 269482012315 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 269482012316 Protein export membrane protein; Region: SecD_SecF; cl14618 269482012317 Preprotein translocase subunit; Region: YajC; cl00806 269482012318 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 269482012319 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 269482012320 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 269482012321 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 269482012322 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 269482012323 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 269482012324 ssDNA binding site; other site 269482012325 generic binding surface II; other site 269482012326 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482012327 ATP binding site [chemical binding]; other site 269482012328 putative Mg++ binding site [ion binding]; other site 269482012329 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482012330 nucleotide binding region [chemical binding]; other site 269482012331 ATP-binding site [chemical binding]; other site 269482012332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012333 Helix-turn-helix domains; Region: HTH; cl00088 269482012334 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 269482012335 dimerization interface [polypeptide binding]; other site 269482012336 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 269482012337 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 269482012338 dimer interface [polypeptide binding]; other site 269482012339 active site 269482012340 heme binding site [chemical binding]; other site 269482012341 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 269482012342 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 269482012343 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 269482012344 dimerization interface [polypeptide binding]; other site 269482012345 DPS ferroxidase diiron center [ion binding]; other site 269482012346 ion pore; other site 269482012347 UbiA prenyltransferase family; Region: UbiA; cl00337 269482012348 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 269482012349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012350 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 269482012351 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482012352 catalytic residue [active] 269482012353 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 269482012354 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482012355 Cysteine-rich domain; Region: CCG; pfam02754 269482012356 Cysteine-rich domain; Region: CCG; pfam02754 269482012357 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 269482012358 FAD binding domain; Region: FAD_binding_4; pfam01565 269482012359 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 269482012360 FAD binding domain; Region: FAD_binding_4; pfam01565 269482012361 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 269482012362 FAD binding domain; Region: FAD_binding_4; pfam01565 269482012363 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 269482012364 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 269482012365 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 269482012366 heme-binding site [chemical binding]; other site 269482012367 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482012368 FAD binding pocket [chemical binding]; other site 269482012369 FAD binding motif [chemical binding]; other site 269482012370 phosphate binding motif [ion binding]; other site 269482012371 beta-alpha-beta structure motif; other site 269482012372 NAD binding pocket [chemical binding]; other site 269482012373 Heme binding pocket [chemical binding]; other site 269482012374 NeuB family; Region: NeuB; cl00496 269482012375 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482012376 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269482012377 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269482012378 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482012379 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 269482012380 putative active site [active] 269482012381 catalytic triad [active] 269482012382 dimer interface [polypeptide binding]; other site 269482012383 TIGR02099 family protein; Region: TIGR02099 269482012384 AsmA-like C-terminal region; Region: AsmA_2; cl15864 269482012385 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 269482012386 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482012387 metal binding triad; other site 269482012388 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482012389 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482012390 metal binding triad; other site 269482012391 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482012392 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 269482012393 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 269482012394 Walker A/P-loop; other site 269482012395 ATP binding site [chemical binding]; other site 269482012396 Q-loop/lid; other site 269482012397 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 269482012398 ABC transporter signature motif; other site 269482012399 Walker B; other site 269482012400 D-loop; other site 269482012401 H-loop/switch region; other site 269482012402 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269482012403 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 269482012404 Helix-turn-helix domains; Region: HTH; cl00088 269482012405 ferrochelatase; Reviewed; Region: hemH; PRK00035 269482012406 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 269482012407 C-terminal domain interface [polypeptide binding]; other site 269482012408 active site 269482012409 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 269482012410 active site 269482012411 N-terminal domain interface [polypeptide binding]; other site 269482012412 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482012413 RNA binding surface [nucleotide binding]; other site 269482012414 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 269482012415 dimer interface [polypeptide binding]; other site 269482012416 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 269482012417 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482012418 catalytic residues [active] 269482012419 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 269482012420 chaperone protein DnaJ; Provisional; Region: PRK10767 269482012421 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 269482012422 HSP70 interaction site [polypeptide binding]; other site 269482012423 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 269482012424 Zn binding sites [ion binding]; other site 269482012425 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 269482012426 dimer interface [polypeptide binding]; other site 269482012427 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269482012428 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269482012429 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 269482012430 substrate-cofactor binding pocket; other site 269482012431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482012432 catalytic residue [active] 269482012433 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 269482012434 oligomerization interface [polypeptide binding]; other site 269482012435 active site 269482012436 metal binding site [ion binding]; metal-binding site 269482012437 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 269482012438 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 269482012439 Substrate-binding site [chemical binding]; other site 269482012440 Substrate specificity [chemical binding]; other site 269482012441 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 269482012442 catalytic center binding site [active] 269482012443 ATP binding site [chemical binding]; other site 269482012444 poly(A) polymerase; Region: pcnB; TIGR01942 269482012445 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269482012446 active site 269482012447 NTP binding site [chemical binding]; other site 269482012448 metal binding triad [ion binding]; metal-binding site 269482012449 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 269482012450 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 269482012451 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 269482012452 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482012453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482012454 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 269482012455 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 269482012456 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 269482012457 dimerization interface [polypeptide binding]; other site 269482012458 putative ATP binding site [chemical binding]; other site 269482012459 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482012460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482012461 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 269482012462 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 269482012463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482012464 ATP binding site [chemical binding]; other site 269482012465 Mg2+ binding site [ion binding]; other site 269482012466 G-X-G motif; other site 269482012467 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 269482012468 ATP binding site [chemical binding]; other site 269482012469 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 269482012470 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482012471 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 269482012472 ligand-binding site [chemical binding]; other site 269482012473 TIGR03442 family protein; Region: TIGR03442 269482012474 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 269482012475 putative active site [active] 269482012476 putative dimer interface [polypeptide binding]; other site 269482012477 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482012478 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 269482012479 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 269482012480 Tetratricopeptide repeat; Region: TPR_6; pfam13174 269482012481 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482012482 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482012483 ligand binding site [chemical binding]; other site 269482012484 translocation protein TolB; Provisional; Region: tolB; PRK02889 269482012485 TolB amino-terminal domain; Region: TolB_N; cl00639 269482012486 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482012487 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482012488 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482012489 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482012490 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482012491 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482012492 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482012493 active site 269482012494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012495 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 269482012496 NAD(P) binding site [chemical binding]; other site 269482012497 active site 269482012498 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482012499 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482012500 dimer interface [polypeptide binding]; other site 269482012501 active site 269482012502 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482012503 folate binding site [chemical binding]; other site 269482012504 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 269482012505 ATP cone domain; Region: ATP-cone; pfam03477 269482012506 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 269482012507 Type II transport protein GspH; Region: GspH; pfam12019 269482012508 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 269482012509 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 269482012510 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 269482012511 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 269482012512 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269482012513 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 269482012514 dimer interface [polypeptide binding]; other site 269482012515 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482012516 catalytic triad [active] 269482012517 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 269482012518 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482012519 FAD binding site [chemical binding]; other site 269482012520 substrate binding pocket [chemical binding]; other site 269482012521 catalytic base [active] 269482012522 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482012523 Helix-turn-helix domains; Region: HTH; cl00088 269482012524 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 269482012525 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 269482012526 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 269482012527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012528 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 269482012529 benzoate transport; Region: 2A0115; TIGR00895 269482012530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012531 putative substrate translocation pore; other site 269482012532 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012533 putative substrate translocation pore; other site 269482012534 Cupin domain; Region: Cupin_2; cl09118 269482012535 fumarylacetoacetase; Region: PLN02856 269482012536 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 269482012537 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482012538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012539 putative substrate translocation pore; other site 269482012540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012541 putative substrate translocation pore; other site 269482012542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482012543 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 269482012544 putative FMN binding site [chemical binding]; other site 269482012545 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482012546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012547 Helix-turn-helix domains; Region: HTH; cl00088 269482012548 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482012549 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482012550 putative effector binding pocket; other site 269482012551 dimerization interface [polypeptide binding]; other site 269482012552 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482012553 Helix-turn-helix domains; Region: HTH; cl00088 269482012554 Integrase core domain; Region: rve; cl01316 269482012555 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269482012556 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482012557 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482012558 catalytic residue [active] 269482012559 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482012560 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482012561 EamA-like transporter family; Region: EamA; cl01037 269482012562 EamA-like transporter family; Region: EamA; cl01037 269482012563 major facilitator superfamily transporter; Provisional; Region: PRK05122 269482012564 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012565 putative substrate translocation pore; other site 269482012566 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 269482012567 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482012568 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482012569 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 269482012570 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 269482012571 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 269482012572 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482012573 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482012574 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 269482012575 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482012576 oligomeric interface; other site 269482012577 putative active site [active] 269482012578 homodimer interface [polypeptide binding]; other site 269482012579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 269482012580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012581 Helix-turn-helix domains; Region: HTH; cl00088 269482012582 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482012583 dimerization interface [polypeptide binding]; other site 269482012584 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 269482012585 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482012586 putative catalytic residue [active] 269482012587 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 269482012588 NMT1-like family; Region: NMT1_2; cl15260 269482012589 BON domain; Region: BON; cl02771 269482012590 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 269482012591 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482012592 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482012593 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482012594 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482012595 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012596 putative substrate translocation pore; other site 269482012597 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 269482012598 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 269482012599 catalytic residues [active] 269482012600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 269482012601 YheO-like PAS domain; Region: PAS_6; pfam08348 269482012602 Helix-turn-helix domains; Region: HTH; cl00088 269482012603 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482012604 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482012605 RNA polymerase sigma factor; Provisional; Region: PRK12511 269482012606 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482012607 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482012608 DNA binding residues [nucleotide binding] 269482012609 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 269482012610 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 269482012611 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482012612 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 269482012613 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 269482012614 putative hydrophobic ligand binding site [chemical binding]; other site 269482012615 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 269482012616 oligomerisation interface [polypeptide binding]; other site 269482012617 mobile loop; other site 269482012618 roof hairpin; other site 269482012619 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269482012620 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 269482012621 ring oligomerisation interface [polypeptide binding]; other site 269482012622 ATP/Mg binding site [chemical binding]; other site 269482012623 stacking interactions; other site 269482012624 hinge regions; other site 269482012625 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 269482012626 dimer interface [polypeptide binding]; other site 269482012627 substrate binding site [chemical binding]; other site 269482012628 ATP binding site [chemical binding]; other site 269482012629 Rubredoxin [Energy production and conversion]; Region: COG1773 269482012630 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482012631 iron binding site [ion binding]; other site 269482012632 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 269482012633 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 269482012634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482012635 active site 269482012636 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 269482012637 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482012638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012639 dihydroorotase; Provisional; Region: PRK07627 269482012640 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 269482012641 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 269482012642 active site 269482012643 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482012644 putative acyl-acceptor binding pocket; other site 269482012645 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 269482012646 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 269482012647 active site 269482012648 metal binding site [ion binding]; metal-binding site 269482012649 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 269482012650 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 269482012651 NAD binding site [chemical binding]; other site 269482012652 substrate binding site [chemical binding]; other site 269482012653 homodimer interface [polypeptide binding]; other site 269482012654 active site 269482012655 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 269482012656 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 269482012657 substrate binding site; other site 269482012658 tetramer interface; other site 269482012659 Cupin domain; Region: Cupin_2; cl09118 269482012660 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 269482012661 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482012662 NADP binding site [chemical binding]; other site 269482012663 active site 269482012664 putative substrate binding site [chemical binding]; other site 269482012665 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 269482012666 putative homodimer interface [polypeptide binding]; other site 269482012667 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482012668 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 269482012669 active site 269482012670 homodimer interface [polypeptide binding]; other site 269482012671 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 269482012672 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 269482012673 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482012674 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482012675 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482012676 Probable Catalytic site; other site 269482012677 metal-binding site 269482012678 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 269482012679 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 269482012680 Walker A/P-loop; other site 269482012681 ATP binding site [chemical binding]; other site 269482012682 Q-loop/lid; other site 269482012683 ABC transporter signature motif; other site 269482012684 Walker B; other site 269482012685 D-loop; other site 269482012686 H-loop/switch region; other site 269482012687 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 269482012688 putative carbohydrate binding site [chemical binding]; other site 269482012689 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 269482012690 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482012691 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 269482012692 trimer interface [polypeptide binding]; other site 269482012693 active site 269482012694 substrate binding site [chemical binding]; other site 269482012695 CoA binding site [chemical binding]; other site 269482012696 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482012697 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482012698 Substrate binding site; other site 269482012699 Cupin domain; Region: Cupin_2; cl09118 269482012700 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482012701 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482012702 Probable Catalytic site; other site 269482012703 metal-binding site 269482012704 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482012705 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 269482012706 putative NAD(P) binding site [chemical binding]; other site 269482012707 active site 269482012708 putative substrate binding site [chemical binding]; other site 269482012709 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 269482012710 Mg++ binding site [ion binding]; other site 269482012711 putative catalytic motif [active] 269482012712 putative substrate binding site [chemical binding]; other site 269482012713 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 269482012714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482012715 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 269482012716 NAD(P) binding site [chemical binding]; other site 269482012717 homodimer interface [polypeptide binding]; other site 269482012718 substrate binding site [chemical binding]; other site 269482012719 active site 269482012720 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 269482012721 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 269482012722 Mg++ binding site [ion binding]; other site 269482012723 putative catalytic motif [active] 269482012724 UDP-glucose 4-epimerase; Region: PLN02240 269482012725 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 269482012726 NAD binding site [chemical binding]; other site 269482012727 homodimer interface [polypeptide binding]; other site 269482012728 active site 269482012729 substrate binding site [chemical binding]; other site 269482012730 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 269482012731 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482012732 putative ADP-binding pocket [chemical binding]; other site 269482012733 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482012734 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482012735 active site 269482012736 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 269482012737 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 269482012738 active site 269482012739 substrate binding site [chemical binding]; other site 269482012740 metal binding site [ion binding]; metal-binding site 269482012741 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482012742 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482012743 putative active site [active] 269482012744 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 269482012745 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 269482012746 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 269482012747 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482012748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482012749 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 269482012750 UreF; Region: UreF; pfam01730 269482012751 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 269482012752 dimer interface [polypeptide binding]; other site 269482012753 catalytic residues [active] 269482012754 urease subunit alpha; Reviewed; Region: ureC; PRK13207 269482012755 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 269482012756 subunit interactions [polypeptide binding]; other site 269482012757 active site 269482012758 flap region; other site 269482012759 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 269482012760 gamma-beta subunit interface [polypeptide binding]; other site 269482012761 alpha-beta subunit interface [polypeptide binding]; other site 269482012762 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 269482012763 alpha-gamma subunit interface [polypeptide binding]; other site 269482012764 beta-gamma subunit interface [polypeptide binding]; other site 269482012765 UreD urease accessory protein; Region: UreD; cl00530 269482012766 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 269482012767 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482012768 Walker A/P-loop; other site 269482012769 ATP binding site [chemical binding]; other site 269482012770 Q-loop/lid; other site 269482012771 ABC transporter signature motif; other site 269482012772 Walker B; other site 269482012773 D-loop; other site 269482012774 H-loop/switch region; other site 269482012775 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482012776 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482012777 Walker A/P-loop; other site 269482012778 ATP binding site [chemical binding]; other site 269482012779 Q-loop/lid; other site 269482012780 ABC transporter signature motif; other site 269482012781 Walker B; other site 269482012782 D-loop; other site 269482012783 H-loop/switch region; other site 269482012784 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 269482012785 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482012786 TM-ABC transporter signature motif; other site 269482012787 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482012788 TM-ABC transporter signature motif; other site 269482012789 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482012790 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 269482012791 putative ligand binding site [chemical binding]; other site 269482012792 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482012793 active site residue [active] 269482012794 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 269482012795 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012796 S-adenosylmethionine binding site [chemical binding]; other site 269482012797 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 269482012798 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482012799 FeS/SAM binding site; other site 269482012800 HemN C-terminal domain; Region: HemN_C; pfam06969 269482012801 Flagellin N-methylase; Region: FliB; cl00497 269482012802 Bacitracin resistance protein BacA; Region: BacA; cl00858 269482012803 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012804 S-adenosylmethionine binding site [chemical binding]; other site 269482012805 Cupin domain; Region: Cupin_2; cl09118 269482012806 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 269482012807 Chromate transporter; Region: Chromate_transp; pfam02417 269482012808 Chromate transporter; Region: Chromate_transp; pfam02417 269482012809 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 269482012810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482012811 DNA-binding site [nucleotide binding]; DNA binding site 269482012812 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482012813 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 269482012814 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 269482012815 dimer interface [polypeptide binding]; other site 269482012816 ADP-ribose binding site [chemical binding]; other site 269482012817 active site 269482012818 nudix motif; other site 269482012819 metal binding site [ion binding]; metal-binding site 269482012820 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 269482012821 NAD-dependent deacetylase; Provisional; Region: PRK00481 269482012822 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482012823 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482012824 active site 269482012825 catalytic triad [active] 269482012826 calcium binding site [ion binding]; other site 269482012827 CrcB-like protein; Region: CRCB; cl09114 269482012828 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 269482012829 YGGT family; Region: YGGT; cl00508 269482012830 YGGT family; Region: YGGT; cl00508 269482012831 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 269482012832 LysE type translocator; Region: LysE; cl00565 269482012833 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 269482012834 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482012835 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482012836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482012837 catalytic residue [active] 269482012838 aminotransferase; Validated; Region: PRK07337 269482012839 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482012840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482012841 homodimer interface [polypeptide binding]; other site 269482012842 catalytic residue [active] 269482012843 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 269482012844 putative RNA binding site [nucleotide binding]; other site 269482012845 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 269482012846 homopentamer interface [polypeptide binding]; other site 269482012847 active site 269482012848 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 269482012849 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 269482012850 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 269482012851 dimerization interface [polypeptide binding]; other site 269482012852 active site 269482012853 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 269482012854 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 269482012855 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 269482012856 catalytic motif [active] 269482012857 Zn binding site [ion binding]; other site 269482012858 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 269482012859 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 269482012860 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482012861 inhibitor-cofactor binding pocket; inhibition site 269482012862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482012863 catalytic residue [active] 269482012864 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 269482012865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012866 putative substrate translocation pore; other site 269482012867 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 269482012868 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 269482012869 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482012870 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482012871 putative active site [active] 269482012872 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 269482012873 putative active site [active] 269482012874 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 269482012875 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 269482012876 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 269482012877 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482012878 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482012879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012880 dimer interface [polypeptide binding]; other site 269482012881 conserved gate region; other site 269482012882 putative PBP binding loops; other site 269482012883 ABC-ATPase subunit interface; other site 269482012884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012885 dimer interface [polypeptide binding]; other site 269482012886 conserved gate region; other site 269482012887 putative PBP binding loops; other site 269482012888 ABC-ATPase subunit interface; other site 269482012889 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269482012890 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 269482012891 Walker A/P-loop; other site 269482012892 ATP binding site [chemical binding]; other site 269482012893 Q-loop/lid; other site 269482012894 ABC transporter signature motif; other site 269482012895 Walker B; other site 269482012896 D-loop; other site 269482012897 H-loop/switch region; other site 269482012898 TOBE domain; Region: TOBE_2; cl01440 269482012899 Predicted membrane protein [Function unknown]; Region: COG2860 269482012900 UPF0126 domain; Region: UPF0126; pfam03458 269482012901 UPF0126 domain; Region: UPF0126; pfam03458 269482012902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 269482012903 Smr domain; Region: Smr; cl02619 269482012904 thioredoxin reductase; Provisional; Region: PRK10262 269482012905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482012906 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 269482012907 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 269482012908 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482012909 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 269482012910 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 269482012911 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 269482012912 recombination factor protein RarA; Reviewed; Region: PRK13342 269482012913 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012914 Walker A motif; other site 269482012915 ATP binding site [chemical binding]; other site 269482012916 Walker B motif; other site 269482012917 arginine finger; other site 269482012918 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 269482012919 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 269482012920 seryl-tRNA synthetase; Provisional; Region: PRK05431 269482012921 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 269482012922 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 269482012923 dimer interface [polypeptide binding]; other site 269482012924 active site 269482012925 motif 1; other site 269482012926 motif 2; other site 269482012927 motif 3; other site 269482012928 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482012929 dimerization interface [polypeptide binding]; other site 269482012930 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482012931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482012932 dimer interface [polypeptide binding]; other site 269482012933 putative CheW interface [polypeptide binding]; other site 269482012934 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 269482012935 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482012936 Di-iron ligands [ion binding]; other site 269482012937 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482012938 septum formation inhibitor; Reviewed; Region: PRK01973 269482012939 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 269482012940 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 269482012941 cell division inhibitor MinD; Provisional; Region: PRK10818 269482012942 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 269482012943 Switch I; other site 269482012944 Switch II; other site 269482012945 Septum formation topological specificity factor MinE; Region: MinE; cl00538 269482012946 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 269482012947 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 269482012948 putative ion selectivity filter; other site 269482012949 putative pore gating glutamate residue; other site 269482012950 putative H+/Cl- coupling transport residue; other site 269482012951 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482012952 Helix-turn-helix domains; Region: HTH; cl00088 269482012953 Integrase core domain; Region: rve; cl01316 269482012954 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482012955 putative active site [active] 269482012956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012957 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482012958 putative substrate translocation pore; other site 269482012959 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 269482012960 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482012961 FeS/SAM binding site; other site 269482012962 HemN C-terminal domain; Region: HemN_C; pfam06969 269482012963 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 269482012964 active site 269482012965 dimerization interface [polypeptide binding]; other site 269482012966 ribonuclease PH; Reviewed; Region: rph; PRK00173 269482012967 Ribonuclease PH; Region: RNase_PH_bact; cd11362 269482012968 hexamer interface [polypeptide binding]; other site 269482012969 active site 269482012970 hypothetical protein; Provisional; Region: PRK11820 269482012971 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 269482012972 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 269482012973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482012974 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 269482012975 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 269482012976 catalytic site [active] 269482012977 Walker A/P-loop; other site 269482012978 G-X2-G-X-G-K; other site 269482012979 ATP binding site [chemical binding]; other site 269482012980 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 269482012981 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482012982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482012983 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 269482012984 synthetase active site [active] 269482012985 NTP binding site [chemical binding]; other site 269482012986 metal binding site [ion binding]; metal-binding site 269482012987 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 269482012988 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 269482012989 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 269482012990 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 269482012991 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482012992 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482012993 trimer interface [polypeptide binding]; other site 269482012994 eyelet of channel; other site 269482012995 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482012996 Helix-turn-helix domains; Region: HTH; cl00088 269482012997 Integrase core domain; Region: rve; cl01316 269482012998 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 269482012999 DNA-binding site [nucleotide binding]; DNA binding site 269482013000 RNA-binding motif; other site 269482013001 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 269482013002 active site 269482013003 catalytic site [active] 269482013004 substrate binding site [chemical binding]; other site 269482013005 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 269482013006 GIY-YIG motif/motif A; other site 269482013007 active site 269482013008 catalytic site [active] 269482013009 putative DNA binding site [nucleotide binding]; other site 269482013010 metal binding site [ion binding]; metal-binding site 269482013011 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 269482013012 Chorismate mutase type II; Region: CM_2; cl00693 269482013013 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482013014 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 269482013015 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482013016 N-terminal plug; other site 269482013017 ligand-binding site [chemical binding]; other site 269482013018 BNR repeat-like domain; Region: BNR_2; pfam13088 269482013019 BNR repeat-like domain; Region: BNR_2; pfam13088 269482013020 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482013021 fructose-1,6-bisphosphatase family protein; Region: PLN02628 269482013022 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 269482013023 AMP binding site [chemical binding]; other site 269482013024 metal binding site [ion binding]; metal-binding site 269482013025 active site 269482013026 aminopeptidase N; Provisional; Region: pepN; PRK14015 269482013027 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 269482013028 active site 269482013029 Zn binding site [ion binding]; other site 269482013030 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 269482013031 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269482013032 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269482013033 guanine deaminase; Provisional; Region: PRK09228 269482013034 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 269482013035 active site 269482013036 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 269482013037 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 269482013038 active site 269482013039 purine riboside binding site [chemical binding]; other site 269482013040 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 269482013041 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 269482013042 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482013043 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 269482013044 amidase; Provisional; Region: PRK07056 269482013045 Amidase; Region: Amidase; cl11426 269482013046 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482013047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482013048 DNA-binding site [nucleotide binding]; DNA binding site 269482013049 FCD domain; Region: FCD; cl11656 269482013050 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 269482013051 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482013052 catalytic triad [active] 269482013053 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 269482013054 citrate-proton symporter; Provisional; Region: PRK15075 269482013055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013056 putative substrate translocation pore; other site 269482013057 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013058 TPR motif; other site 269482013059 binding surface 269482013060 TPR repeat; Region: TPR_11; pfam13414 269482013061 TPR repeat; Region: TPR_11; pfam13414 269482013062 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013063 binding surface 269482013064 TPR motif; other site 269482013065 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013066 TPR motif; other site 269482013067 binding surface 269482013068 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 269482013069 hypothetical protein; Provisional; Region: PRK06184 269482013070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013071 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 269482013072 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 269482013073 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482013074 catalytic loop [active] 269482013075 iron binding site [ion binding]; other site 269482013076 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 269482013077 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 269482013078 [4Fe-4S] binding site [ion binding]; other site 269482013079 molybdopterin cofactor binding site; other site 269482013080 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 269482013081 molybdopterin cofactor binding site; other site 269482013082 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 269482013083 putative dimer interface [polypeptide binding]; other site 269482013084 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 269482013085 SLBB domain; Region: SLBB; pfam10531 269482013086 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 269482013087 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 269482013088 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 269482013089 putative dimer interface [polypeptide binding]; other site 269482013090 [2Fe-2S] cluster binding site [ion binding]; other site 269482013091 Helix-turn-helix domains; Region: HTH; cl00088 269482013092 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482013093 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013094 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482013095 phosphoglycolate phosphatase; Provisional; Region: PRK13222 269482013096 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 269482013097 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482013098 S-adenosylmethionine binding site [chemical binding]; other site 269482013099 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482013100 ligand binding site [chemical binding]; other site 269482013101 DNA gyrase subunit A; Validated; Region: PRK05560 269482013102 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 269482013103 CAP-like domain; other site 269482013104 active site 269482013105 primary dimer interface [polypeptide binding]; other site 269482013106 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013112 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 269482013113 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 269482013114 homodimer interface [polypeptide binding]; other site 269482013115 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 269482013116 substrate-cofactor binding pocket; other site 269482013117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013118 catalytic residue [active] 269482013119 Chorismate mutase type II; Region: CM_2; cl00693 269482013120 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 269482013121 Prephenate dehydratase; Region: PDT; pfam00800 269482013122 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 269482013123 putative L-Phe binding site [chemical binding]; other site 269482013124 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 269482013125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013126 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 269482013127 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 269482013128 hinge; other site 269482013129 active site 269482013130 cytidylate kinase; Provisional; Region: cmk; PRK00023 269482013131 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 269482013132 CMP-binding site; other site 269482013133 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 269482013134 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 269482013135 RNA binding site [nucleotide binding]; other site 269482013136 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 269482013137 RNA binding site [nucleotide binding]; other site 269482013138 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 269482013139 RNA binding site [nucleotide binding]; other site 269482013140 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 269482013141 RNA binding site [nucleotide binding]; other site 269482013142 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 269482013143 RNA binding site [nucleotide binding]; other site 269482013144 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 269482013145 RNA binding site [nucleotide binding]; other site 269482013146 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482013147 IHF dimer interface [polypeptide binding]; other site 269482013148 IHF - DNA interface [nucleotide binding]; other site 269482013149 tetratricopeptide repeat protein; Provisional; Region: PRK11788 269482013150 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013151 binding surface 269482013152 TPR motif; other site 269482013153 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482013154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013155 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482013156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013157 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 269482013158 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482013159 putative ribose interaction site [chemical binding]; other site 269482013160 putative ADP binding site [chemical binding]; other site 269482013161 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 269482013162 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 269482013163 NADP binding site [chemical binding]; other site 269482013164 homopentamer interface [polypeptide binding]; other site 269482013165 substrate binding site [chemical binding]; other site 269482013166 active site 269482013167 Protein of unknown function, DUF655; Region: DUF655; pfam04919 269482013168 cysteine synthase B; Region: cysM; TIGR01138 269482013169 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 269482013170 dimer interface [polypeptide binding]; other site 269482013171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013172 catalytic residue [active] 269482013173 Transglycosylase SLT domain; Region: SLT_2; pfam13406 269482013174 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482013175 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482013176 catalytic residue [active] 269482013177 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482013178 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269482013179 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 269482013180 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482013181 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 269482013182 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 269482013183 Walker A/P-loop; other site 269482013184 ATP binding site [chemical binding]; other site 269482013185 Q-loop/lid; other site 269482013186 ABC transporter signature motif; other site 269482013187 Walker B; other site 269482013188 D-loop; other site 269482013189 H-loop/switch region; other site 269482013190 NIL domain; Region: NIL; cl09633 269482013191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013192 dimer interface [polypeptide binding]; other site 269482013193 conserved gate region; other site 269482013194 ABC-ATPase subunit interface; other site 269482013195 NMT1-like family; Region: NMT1_2; cl15260 269482013196 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482013197 Ligand binding site [chemical binding]; other site 269482013198 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482013199 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482013200 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 269482013201 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482013202 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 269482013203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482013204 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482013205 Helix-turn-helix domains; Region: HTH; cl00088 269482013206 AsnC family; Region: AsnC_trans_reg; pfam01037 269482013207 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 269482013208 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 269482013209 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 269482013210 RimM N-terminal domain; Region: RimM; pfam01782 269482013211 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269482013212 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 269482013213 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 269482013214 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 269482013215 putative active site [active] 269482013216 putative CoA binding site [chemical binding]; other site 269482013217 nudix motif; other site 269482013218 metal binding site [ion binding]; metal-binding site 269482013219 CobD/Cbib protein; Region: CobD_Cbib; cl00561 269482013220 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 269482013221 GTPase RsgA; Reviewed; Region: PRK00098 269482013222 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 269482013223 homodimer interface [polypeptide binding]; other site 269482013224 RNA binding site [nucleotide binding]; other site 269482013225 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 269482013226 GTPase/Zn-binding domain interface [polypeptide binding]; other site 269482013227 GTP/Mg2+ binding site [chemical binding]; other site 269482013228 G4 box; other site 269482013229 G5 box; other site 269482013230 G1 box; other site 269482013231 Switch I region; other site 269482013232 G2 box; other site 269482013233 G3 box; other site 269482013234 Switch II region; other site 269482013235 Peptidase family M48; Region: Peptidase_M48; cl12018 269482013236 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 269482013237 catalytic site [active] 269482013238 putative active site [active] 269482013239 putative substrate binding site [chemical binding]; other site 269482013240 dimer interface [polypeptide binding]; other site 269482013241 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 269482013242 MPT binding site; other site 269482013243 trimer interface [polypeptide binding]; other site 269482013244 Protein of unknown function (DUF615); Region: DUF615; cl01147 269482013245 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269482013246 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269482013247 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 269482013248 folate binding site [chemical binding]; other site 269482013249 NADP+ binding site [chemical binding]; other site 269482013250 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482013251 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482013252 Walker A motif; other site 269482013253 ATP binding site [chemical binding]; other site 269482013254 Walker B motif; other site 269482013255 arginine finger; other site 269482013256 Helix-turn-helix domains; Region: HTH; cl00088 269482013257 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 269482013258 dimerization interface [polypeptide binding]; other site 269482013259 active site 269482013260 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482013261 dimerization interface [polypeptide binding]; other site 269482013262 putative DNA binding site [nucleotide binding]; other site 269482013263 putative Zn2+ binding site [ion binding]; other site 269482013264 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 269482013265 fumarate hydratase; Reviewed; Region: fumC; PRK00485 269482013266 Class II fumarases; Region: Fumarase_classII; cd01362 269482013267 active site 269482013268 tetramer interface [polypeptide binding]; other site 269482013269 putative efflux protein, MATE family; Region: matE; TIGR00797 269482013270 MatE; Region: MatE; cl10513 269482013271 MatE; Region: MatE; cl10513 269482013272 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 269482013273 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 269482013274 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 269482013275 AzlC protein; Region: AzlC; cl00570 269482013276 Cupin domain; Region: Cupin_2; cl09118 269482013277 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482013278 CreA protein; Region: CreA; pfam05981 269482013279 Ferredoxin [Energy production and conversion]; Region: COG1146 269482013280 4Fe-4S binding domain; Region: Fer4; cl02805 269482013281 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 269482013282 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 269482013283 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 269482013284 active site 269482013285 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482013286 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 269482013287 glyoxylate reductase; Reviewed; Region: PRK13243 269482013288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013289 RmuC family; Region: RmuC; pfam02646 269482013290 putative acetyltransferase; Provisional; Region: PRK03624 269482013291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482013292 Coenzyme A binding pocket [chemical binding]; other site 269482013293 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 269482013294 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 269482013295 dimer interface [polypeptide binding]; other site 269482013296 putative functional site; other site 269482013297 putative MPT binding site; other site 269482013298 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 269482013299 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 269482013300 GTP binding site; other site 269482013301 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 269482013302 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482013303 FeS/SAM binding site; other site 269482013304 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 269482013305 ribonuclease E; Reviewed; Region: rne; PRK10811 269482013306 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 269482013307 homodimer interface [polypeptide binding]; other site 269482013308 oligonucleotide binding site [chemical binding]; other site 269482013309 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 269482013310 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 269482013311 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 269482013312 active site 269482013313 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 269482013314 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482013315 motif II; other site 269482013316 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 269482013317 iron-sulfur cluster [ion binding]; other site 269482013318 [2Fe-2S] cluster binding site [ion binding]; other site 269482013319 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 269482013320 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 269482013321 tandem repeat interface [polypeptide binding]; other site 269482013322 oligomer interface [polypeptide binding]; other site 269482013323 active site residues [active] 269482013324 Predicted methyltransferases [General function prediction only]; Region: COG0313 269482013325 Maf-like protein; Region: Maf; pfam02545 269482013326 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 269482013327 active site 269482013328 dimer interface [polypeptide binding]; other site 269482013329 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 269482013330 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 269482013331 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269482013332 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 269482013333 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 269482013334 dimer interface [polypeptide binding]; other site 269482013335 active site 269482013336 CoA binding pocket [chemical binding]; other site 269482013337 Acyl transferase domain; Region: Acyl_transf_1; cl08282 269482013338 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 269482013339 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482013340 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482013341 NAD(P) binding site [chemical binding]; other site 269482013342 homotetramer interface [polypeptide binding]; other site 269482013343 homodimer interface [polypeptide binding]; other site 269482013344 active site 269482013345 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482013346 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 269482013347 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482013348 dimer interface [polypeptide binding]; other site 269482013349 active site 269482013350 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 269482013351 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482013352 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482013353 DNA binding residues [nucleotide binding] 269482013354 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 269482013355 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 269482013356 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 269482013357 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482013358 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482013359 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482013360 protein binding site [polypeptide binding]; other site 269482013361 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482013362 protein binding site [polypeptide binding]; other site 269482013363 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482013364 GTP-binding protein LepA; Provisional; Region: PRK05433 269482013365 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 269482013366 G1 box; other site 269482013367 putative GEF interaction site [polypeptide binding]; other site 269482013368 GTP/Mg2+ binding site [chemical binding]; other site 269482013369 Switch I region; other site 269482013370 G2 box; other site 269482013371 G3 box; other site 269482013372 Switch II region; other site 269482013373 G4 box; other site 269482013374 G5 box; other site 269482013375 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 269482013376 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 269482013377 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 269482013378 signal peptidase I; Provisional; Region: PRK10861 269482013379 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482013380 Catalytic site [active] 269482013381 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482013382 ribonuclease III; Reviewed; Region: PRK12372 269482013383 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 269482013384 dimerization interface [polypeptide binding]; other site 269482013385 active site 269482013386 metal binding site [ion binding]; metal-binding site 269482013387 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 269482013388 GTPase Era; Reviewed; Region: era; PRK00089 269482013389 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 269482013390 G1 box; other site 269482013391 GTP/Mg2+ binding site [chemical binding]; other site 269482013392 Switch I region; other site 269482013393 G2 box; other site 269482013394 Switch II region; other site 269482013395 G3 box; other site 269482013396 G4 box; other site 269482013397 G5 box; other site 269482013398 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 269482013399 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 269482013400 Recombination protein O N terminal; Region: RecO_N; cl15812 269482013401 Recombination protein O C terminal; Region: RecO_C; pfam02565 269482013402 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 269482013403 active site 269482013404 hydrophilic channel; other site 269482013405 dimerization interface [polypeptide binding]; other site 269482013406 catalytic residues [active] 269482013407 active site lid [active] 269482013408 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 269482013409 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 269482013410 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482013411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482013412 active site 269482013413 phosphorylation site [posttranslational modification] 269482013414 intermolecular recognition site; other site 269482013415 dimerization interface [polypeptide binding]; other site 269482013416 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482013417 Walker A motif; other site 269482013418 ATP binding site [chemical binding]; other site 269482013419 Walker B motif; other site 269482013420 Helix-turn-helix domains; Region: HTH; cl00088 269482013421 elongation factor P; Validated; Region: PRK00529 269482013422 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 269482013423 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 269482013424 RNA binding site [nucleotide binding]; other site 269482013425 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 269482013426 RNA binding site [nucleotide binding]; other site 269482013427 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 269482013428 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 269482013429 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 269482013430 GIY-YIG motif/motif A; other site 269482013431 active site 269482013432 catalytic site [active] 269482013433 putative DNA binding site [nucleotide binding]; other site 269482013434 metal binding site [ion binding]; metal-binding site 269482013435 UvrB/uvrC motif; Region: UVR; pfam02151 269482013436 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 269482013437 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269482013438 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482013439 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482013440 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482013441 non-specific DNA binding site [nucleotide binding]; other site 269482013442 salt bridge; other site 269482013443 sequence-specific DNA binding site [nucleotide binding]; other site 269482013444 Cupin domain; Region: Cupin_2; cl09118 269482013445 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 269482013446 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 269482013447 active site 269482013448 GAF domain; Region: GAF; cl15785 269482013449 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482013450 Helix-turn-helix domains; Region: HTH; cl00088 269482013451 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 269482013452 putative effector binding pocket; other site 269482013453 putative dimerization interface [polypeptide binding]; other site 269482013454 Pirin-related protein [General function prediction only]; Region: COG1741 269482013455 Cupin domain; Region: Cupin_2; cl09118 269482013456 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482013457 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482013458 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 269482013459 Protein of unknown function (DUF461); Region: DUF461; cl01071 269482013460 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 269482013461 Cu(I) binding site [ion binding]; other site 269482013462 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482013463 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 269482013464 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482013465 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482013466 active site 269482013467 homotetramer interface [polypeptide binding]; other site 269482013468 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269482013469 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482013470 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269482013471 Walker A/P-loop; other site 269482013472 ATP binding site [chemical binding]; other site 269482013473 Q-loop/lid; other site 269482013474 ABC transporter signature motif; other site 269482013475 Walker B; other site 269482013476 D-loop; other site 269482013477 H-loop/switch region; other site 269482013478 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482013479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482013480 putative ADP-binding pocket [chemical binding]; other site 269482013481 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 269482013482 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 269482013483 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 269482013484 active site 269482013485 tetramer interface [polypeptide binding]; other site 269482013486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482013487 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 269482013488 DNA-binding site [nucleotide binding]; DNA binding site 269482013489 FCD domain; Region: FCD; cl11656 269482013490 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482013491 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482013492 dimerization interface [polypeptide binding]; other site 269482013493 ligand binding site [chemical binding]; other site 269482013494 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482013495 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482013496 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482013497 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482013498 pyridoxamine kinase; Validated; Region: PRK05756 269482013499 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 269482013500 dimer interface [polypeptide binding]; other site 269482013501 pyridoxal binding site [chemical binding]; other site 269482013502 ATP binding site [chemical binding]; other site 269482013503 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482013504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482013505 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482013506 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 269482013507 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 269482013508 ligand binding site; other site 269482013509 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 269482013510 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 269482013511 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 269482013512 B12 binding site [chemical binding]; other site 269482013513 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482013514 FeS/SAM binding site; other site 269482013515 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 269482013516 putative active site [active] 269482013517 YdjC motif; other site 269482013518 Mg binding site [ion binding]; other site 269482013519 putative homodimer interface [polypeptide binding]; other site 269482013520 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 269482013521 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 269482013522 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482013523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013524 dimer interface [polypeptide binding]; other site 269482013525 conserved gate region; other site 269482013526 putative PBP binding loops; other site 269482013527 ABC-ATPase subunit interface; other site 269482013528 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482013529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013530 dimer interface [polypeptide binding]; other site 269482013531 conserved gate region; other site 269482013532 putative PBP binding loops; other site 269482013533 ABC-ATPase subunit interface; other site 269482013534 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482013535 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482013536 Walker A/P-loop; other site 269482013537 ATP binding site [chemical binding]; other site 269482013538 Q-loop/lid; other site 269482013539 ABC transporter signature motif; other site 269482013540 Walker B; other site 269482013541 D-loop; other site 269482013542 H-loop/switch region; other site 269482013543 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482013544 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482013545 conserved cys residue [active] 269482013546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482013547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482013548 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482013549 MULE transposase domain; Region: MULE; pfam10551 269482013550 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 269482013551 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482013552 inhibitor-cofactor binding pocket; inhibition site 269482013553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013554 catalytic residue [active] 269482013555 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482013556 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482013557 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482013558 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 269482013559 NAD(P) binding site [chemical binding]; other site 269482013560 catalytic residues [active] 269482013561 Succinylarginine dihydrolase; Region: AstB; cl01511 269482013562 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 269482013563 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 269482013564 active site 269482013565 Zn binding site [ion binding]; other site 269482013566 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482013567 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482013568 substrate binding pocket [chemical binding]; other site 269482013569 membrane-bound complex binding site; other site 269482013570 hinge residues; other site 269482013571 HDOD domain; Region: HDOD; pfam08668 269482013572 FO synthase; Reviewed; Region: fbiC; PRK09234 269482013573 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482013574 PAS domain; Region: PAS_9; pfam13426 269482013575 putative active site [active] 269482013576 heme pocket [chemical binding]; other site 269482013577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482013578 metal binding site [ion binding]; metal-binding site 269482013579 active site 269482013580 I-site; other site 269482013581 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482013582 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 269482013583 catalytic triad [active] 269482013584 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 269482013585 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482013586 NAD(P) binding site [chemical binding]; other site 269482013587 putative active site [active] 269482013588 LabA_like proteins; Region: LabA_like/DUF88; cl10034 269482013589 putative metal binding site [ion binding]; other site 269482013590 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 269482013591 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 269482013592 Protein export membrane protein; Region: SecD_SecF; cl14618 269482013593 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 269482013594 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 269482013595 Protein export membrane protein; Region: SecD_SecF; cl14618 269482013596 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 269482013597 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482013598 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482013599 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482013600 Helix-turn-helix domains; Region: HTH; cl00088 269482013601 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482013602 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 269482013603 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 269482013604 Predicted transcriptional regulator [Transcription]; Region: COG1959 269482013605 Helix-turn-helix domains; Region: HTH; cl00088 269482013606 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 269482013607 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482013608 NAD binding site [chemical binding]; other site 269482013609 substrate binding site [chemical binding]; other site 269482013610 putative active site [active] 269482013611 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482013612 Helix-turn-helix domains; Region: HTH; cl00088 269482013613 AsnC family; Region: AsnC_trans_reg; pfam01037 269482013614 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 269482013615 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 269482013616 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482013617 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 269482013618 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 269482013619 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 269482013620 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 269482013621 Family description; Region: UvrD_C_2; cl15862 269482013622 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269482013623 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 269482013624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482013625 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 269482013626 Family description; Region: UvrD_C_2; cl15862 269482013627 RF-1 domain; Region: RF-1; cl02875 269482013628 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482013629 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482013630 EamA-like transporter family; Region: EamA; cl01037 269482013631 EamA-like transporter family; Region: EamA; cl01037 269482013632 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 269482013633 ThiC-associated domain; Region: ThiC-associated; pfam13667 269482013634 ThiC family; Region: ThiC; cl08031 269482013635 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482013636 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482013637 Moco binding site; other site 269482013638 metal coordination site [ion binding]; other site 269482013639 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 269482013640 EamA-like transporter family; Region: EamA; cl01037 269482013641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013642 putative substrate translocation pore; other site 269482013643 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 269482013644 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482013645 active site 269482013646 metal binding site [ion binding]; metal-binding site 269482013647 hexamer interface [polypeptide binding]; other site 269482013648 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482013649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482013650 Walker A/P-loop; other site 269482013651 ATP binding site [chemical binding]; other site 269482013652 Q-loop/lid; other site 269482013653 ABC transporter signature motif; other site 269482013654 Walker B; other site 269482013655 D-loop; other site 269482013656 H-loop/switch region; other site 269482013657 TOBE domain; Region: TOBE_2; cl01440 269482013658 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482013659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013660 dimer interface [polypeptide binding]; other site 269482013661 conserved gate region; other site 269482013662 putative PBP binding loops; other site 269482013663 ABC-ATPase subunit interface; other site 269482013664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482013665 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482013666 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013667 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482013668 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482013669 DNA binding site [nucleotide binding] 269482013670 domain linker motif; other site 269482013671 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 269482013672 putative dimerization interface [polypeptide binding]; other site 269482013673 putative ligand binding site [chemical binding]; other site 269482013674 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482013675 active site 269482013676 DNA binding site [nucleotide binding] 269482013677 Int/Topo IB signature motif; other site 269482013678 Protein of unknown function (DUF551); Region: DUF551; pfam04448 269482013679 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482013680 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 269482013681 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482013682 cofactor binding site; other site 269482013683 DNA binding site [nucleotide binding] 269482013684 substrate interaction site [chemical binding]; other site 269482013685 RecT family; Region: RecT; cl04285 269482013686 exonuclease VIII; Reviewed; Region: PRK09709 269482013687 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482013688 non-specific DNA binding site [nucleotide binding]; other site 269482013689 salt bridge; other site 269482013690 sequence-specific DNA binding site [nucleotide binding]; other site 269482013691 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482013692 Catalytic site [active] 269482013693 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482013694 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 269482013695 replicative DNA helicase; Region: DnaB; TIGR00665 269482013696 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482013697 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482013698 Walker A motif; other site 269482013699 ATP binding site [chemical binding]; other site 269482013700 Walker B motif; other site 269482013701 DNA binding loops [nucleotide binding] 269482013702 NinB protein; Region: NinB; cl14671 269482013703 NUMOD4 motif; Region: NUMOD4; pfam07463 269482013704 HNH endonuclease; Region: HNH_3; pfam13392 269482013705 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482013706 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 269482013707 Helix-turn-helix domains; Region: HTH; cl00088 269482013708 Terminase-like family; Region: Terminase_6; pfam03237 269482013709 Phage terminase large subunit; Region: Terminase_3; cl12054 269482013710 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 269482013711 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 269482013712 Cupin domain; Region: Cupin_2; cl09118 269482013713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482013714 Coenzyme A binding pocket [chemical binding]; other site 269482013715 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482013716 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482013717 catalytic residue [active] 269482013718 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 269482013719 Catalytic domain of bacteriophage endosialidase; Region: End_tail_spike; pfam12219 269482013720 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 269482013721 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482013722 Helix-turn-helix domains; Region: HTH; cl00088 269482013723 Integrase core domain; Region: rve; cl01316 269482013724 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 269482013725 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 269482013726 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482013727 active site 269482013728 catalytic triad [active] 269482013729 oxyanion hole [active] 269482013730 Domain of unknown function (DUF932); Region: DUF932; cl12129 269482013731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482013732 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482013733 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482013734 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482013735 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482013736 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 269482013737 Transposase domain (DUF772); Region: DUF772; pfam05598 269482013738 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482013739 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482013740 PAAR motif; Region: PAAR_motif; cl15808 269482013741 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482013742 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482013743 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482013744 MULE transposase domain; Region: MULE; pfam10551 269482013745 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482013746 trimer interface [polypeptide binding]; other site 269482013747 eyelet of channel; other site 269482013748 Flavin Reductases; Region: FlaRed; cl00801 269482013749 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 269482013750 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482013751 Na binding site [ion binding]; other site 269482013752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482013753 Helix-turn-helix domains; Region: HTH; cl00088 269482013754 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482013755 dimerization interface [polypeptide binding]; other site 269482013756 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013757 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482013758 putative substrate translocation pore; other site 269482013759 allantoate amidohydrolase; Reviewed; Region: PRK12893 269482013760 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482013761 active site 269482013762 metal binding site [ion binding]; metal-binding site 269482013763 dimer interface [polypeptide binding]; other site 269482013764 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269482013765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013766 putative substrate translocation pore; other site 269482013767 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482013768 Helix-turn-helix domains; Region: HTH; cl00088 269482013769 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482013770 dimerization interface [polypeptide binding]; other site 269482013771 substrate binding pocket [chemical binding]; other site 269482013772 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482013773 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 269482013774 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482013775 catalytic residue [active] 269482013776 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 269482013777 Helix-turn-helix domains; Region: HTH; cl00088 269482013778 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013779 dimerization interface [polypeptide binding]; other site 269482013780 Integral membrane protein TerC family; Region: TerC; cl10468 269482013781 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 269482013782 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 269482013783 putative dimer interface [polypeptide binding]; other site 269482013784 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269482013785 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 269482013786 putative dimer interface [polypeptide binding]; other site 269482013787 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 269482013788 Helix-turn-helix domains; Region: HTH; cl00088 269482013789 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013790 dimerization interface [polypeptide binding]; other site 269482013791 Malonate transporter MadL subunit; Region: MadL; cl04273 269482013792 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 269482013793 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 269482013794 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482013795 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 269482013796 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482013797 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482013798 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 269482013799 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 269482013800 Acyl transferase domain; Region: Acyl_transf_1; cl08282 269482013801 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482013802 putative active site [active] 269482013803 catalytic site [active] 269482013804 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482013805 active site 269482013806 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 269482013807 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482013808 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482013809 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482013810 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 269482013811 dimer interface [polypeptide binding]; other site 269482013812 N-terminal domain interface [polypeptide binding]; other site 269482013813 putative substrate binding pocket (H-site) [chemical binding]; other site 269482013814 proline/glycine betaine transporter; Provisional; Region: PRK10642 269482013815 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013816 putative substrate translocation pore; other site 269482013817 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 269482013818 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 269482013819 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 269482013820 active site 269482013821 catalytic site [active] 269482013822 substrate binding site [chemical binding]; other site 269482013823 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 269482013824 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482013825 active site 269482013826 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482013827 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482013828 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 269482013829 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482013830 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482013831 catalytic residue [active] 269482013832 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 269482013833 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 269482013834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013835 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482013836 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 269482013837 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 269482013838 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 269482013839 catalytic site [active] 269482013840 subunit interface [polypeptide binding]; other site 269482013841 LysE type translocator; Region: LysE; cl00565 269482013842 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 269482013843 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482013844 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482013845 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 269482013846 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482013847 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482013848 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 269482013849 IMP binding site; other site 269482013850 dimer interface [polypeptide binding]; other site 269482013851 interdomain contacts; other site 269482013852 partial ornithine binding site; other site 269482013853 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 269482013854 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 269482013855 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482013856 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 269482013857 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 269482013858 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 269482013859 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482013860 FtsH Extracellular; Region: FtsH_ext; pfam06480 269482013861 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269482013862 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482013863 Walker A motif; other site 269482013864 ATP binding site [chemical binding]; other site 269482013865 Walker B motif; other site 269482013866 arginine finger; other site 269482013867 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482013868 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 269482013869 dihydropteroate synthase; Region: DHPS; TIGR01496 269482013870 substrate binding pocket [chemical binding]; other site 269482013871 dimer interface [polypeptide binding]; other site 269482013872 inhibitor binding site; inhibition site 269482013873 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 269482013874 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 269482013875 active site 269482013876 substrate binding site [chemical binding]; other site 269482013877 metal binding site [ion binding]; metal-binding site 269482013878 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013880 dimer interface [polypeptide binding]; other site 269482013881 conserved gate region; other site 269482013882 putative PBP binding loops; other site 269482013883 ABC-ATPase subunit interface; other site 269482013884 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 269482013885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013886 dimer interface [polypeptide binding]; other site 269482013887 conserved gate region; other site 269482013888 putative PBP binding loops; other site 269482013889 ABC-ATPase subunit interface; other site 269482013890 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 269482013891 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 269482013892 Walker A/P-loop; other site 269482013893 ATP binding site [chemical binding]; other site 269482013894 Q-loop/lid; other site 269482013895 ABC transporter signature motif; other site 269482013896 Walker B; other site 269482013897 D-loop; other site 269482013898 H-loop/switch region; other site 269482013899 transcriptional regulator PhoU; Provisional; Region: PRK11115 269482013900 PhoU domain; Region: PhoU; pfam01895 269482013901 PhoU domain; Region: PhoU; pfam01895 269482013902 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 269482013903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482013904 active site 269482013905 phosphorylation site [posttranslational modification] 269482013906 intermolecular recognition site; other site 269482013907 dimerization interface [polypeptide binding]; other site 269482013908 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482013909 DNA binding site [nucleotide binding] 269482013910 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482013911 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482013912 dimer interface [polypeptide binding]; other site 269482013913 phosphorylation site [posttranslational modification] 269482013914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482013915 ATP binding site [chemical binding]; other site 269482013916 Mg2+ binding site [ion binding]; other site 269482013917 G-X-G motif; other site 269482013918 polyphosphate kinase; Provisional; Region: PRK05443 269482013919 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 269482013920 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 269482013921 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 269482013922 putative domain interface [polypeptide binding]; other site 269482013923 putative active site [active] 269482013924 catalytic site [active] 269482013925 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 269482013926 putative domain interface [polypeptide binding]; other site 269482013927 putative active site [active] 269482013928 catalytic site [active] 269482013929 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 269482013930 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 269482013931 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 269482013932 Mor transcription activator family; Region: Mor; cl02360 269482013933 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482013934 Helix-turn-helix domains; Region: HTH; cl00088 269482013935 Integrase core domain; Region: rve; cl01316 269482013936 Mu-like prophage I protein [General function prediction only]; Region: COG4388 269482013937 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 269482013938 catalytic core [active] 269482013939 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482013940 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 269482013941 MatE; Region: MatE; cl10513 269482013942 MatE; Region: MatE; cl10513 269482013943 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 269482013944 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482013945 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 269482013946 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 269482013947 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 269482013948 active site 269482013949 catalytic residues [active] 269482013950 Helix-turn-helix domains; Region: HTH; cl00088 269482013951 Winged helix-turn helix; Region: HTH_29; pfam13551 269482013952 Helix-turn-helix domains; Region: HTH; cl00088 269482013953 Winged helix-turn helix; Region: HTH_33; pfam13592 269482013954 Integrase core domain; Region: rve; cl01316 269482013955 Bacitracin resistance protein BacA; Region: BacA; cl00858 269482013956 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 269482013957 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 269482013958 Baseplate J-like protein; Region: Baseplate_J; cl01294 269482013959 Phage protein GP46; Region: GP46; cl01814 269482013960 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 269482013961 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 269482013962 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482013963 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 269482013964 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 269482013965 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 269482013966 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 269482013967 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 269482013968 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 269482013969 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 269482013970 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 269482013971 Mu-like prophage I protein [General function prediction only]; Region: COG4388 269482013972 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 269482013973 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 269482013974 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 269482013975 Protein of unknown function (DUF935); Region: DUF935; pfam06074 269482013976 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 269482013977 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 269482013978 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 269482013979 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 269482013980 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482013981 catalytic residue [active] 269482013982 Mor transcription activator family; Region: Mor; cl02360 269482013983 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 269482013984 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 269482013985 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 269482013986 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 269482013987 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482013988 DNA binding site [nucleotide binding] 269482013989 Helix-turn-helix domains; Region: HTH; cl00088 269482013990 AAA domain; Region: AAA_22; pfam13401 269482013991 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 269482013992 Integrase core domain; Region: rve; cl01316 269482013993 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482013994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482013995 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482013996 Catalytic site [active] 269482013997 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482013998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482013999 WYL domain; Region: WYL; cl14852 269482014000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482014001 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482014002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482014003 dimer interface [polypeptide binding]; other site 269482014004 phosphorylation site [posttranslational modification] 269482014005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482014006 ATP binding site [chemical binding]; other site 269482014007 Mg2+ binding site [ion binding]; other site 269482014008 G-X-G motif; other site 269482014009 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 269482014010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014011 active site 269482014012 phosphorylation site [posttranslational modification] 269482014013 intermolecular recognition site; other site 269482014014 dimerization interface [polypeptide binding]; other site 269482014015 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482014016 DNA binding site [nucleotide binding] 269482014017 MltA-interacting protein MipA; Region: MipA; cl01504 269482014018 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482014019 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482014020 catalytic residue [active] 269482014021 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482014022 VirB7 interaction site; other site 269482014023 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482014024 trimer interface [polypeptide binding]; other site 269482014025 eyelet of channel; other site 269482014026 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 269482014027 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482014028 putative acyl-acceptor binding pocket; other site 269482014029 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269482014030 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 269482014031 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482014032 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482014033 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 269482014034 active site 269482014035 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482014036 active site 269482014037 catalytic residues [active] 269482014038 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 269482014039 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 269482014040 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 269482014041 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 269482014042 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 269482014043 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 269482014044 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 269482014045 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 269482014046 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 269482014047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014048 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 269482014049 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269482014050 DXD motif; other site 269482014051 PilZ domain; Region: PilZ; cl01260 269482014052 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 269482014053 Cupin domain; Region: Cupin_2; cl09118 269482014054 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482014055 OsmC-like protein; Region: OsmC; cl00767 269482014056 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482014057 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 269482014058 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482014059 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482014060 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 269482014061 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 269482014062 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482014063 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 269482014064 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 269482014065 nudix motif; other site 269482014066 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 269482014067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482014068 active site 269482014069 HIGH motif; other site 269482014070 nucleotide binding site [chemical binding]; other site 269482014071 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 269482014072 KMSKS motif; other site 269482014073 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 269482014074 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482014075 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482014076 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482014077 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 269482014078 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 269482014079 motif 1; other site 269482014080 active site 269482014081 motif 2; other site 269482014082 motif 3; other site 269482014083 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 269482014084 DHHA1 domain; Region: DHHA1; pfam02272 269482014085 Helix-turn-helix domains; Region: HTH; cl00088 269482014086 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014087 dimerization interface [polypeptide binding]; other site 269482014088 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 269482014089 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 269482014090 nudix motif; other site 269482014091 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482014092 active site 269482014093 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482014094 TM-ABC transporter signature motif; other site 269482014095 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482014096 TM-ABC transporter signature motif; other site 269482014097 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482014098 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482014099 Walker A/P-loop; other site 269482014100 ATP binding site [chemical binding]; other site 269482014101 Q-loop/lid; other site 269482014102 ABC transporter signature motif; other site 269482014103 Walker B; other site 269482014104 D-loop; other site 269482014105 H-loop/switch region; other site 269482014106 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482014107 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482014108 Walker A/P-loop; other site 269482014109 ATP binding site [chemical binding]; other site 269482014110 Q-loop/lid; other site 269482014111 ABC transporter signature motif; other site 269482014112 Walker B; other site 269482014113 D-loop; other site 269482014114 H-loop/switch region; other site 269482014115 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482014116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014117 NAD(P) binding site [chemical binding]; other site 269482014118 active site 269482014119 KduI/IolB family; Region: KduI; cl01508 269482014120 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 269482014121 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 269482014122 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482014123 dimer interface [polypeptide binding]; other site 269482014124 PYR/PP interface [polypeptide binding]; other site 269482014125 TPP binding site [chemical binding]; other site 269482014126 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482014127 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 269482014128 TPP-binding site [chemical binding]; other site 269482014129 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482014130 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482014131 substrate binding site [chemical binding]; other site 269482014132 ATP binding site [chemical binding]; other site 269482014133 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 269482014134 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 269482014135 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482014136 putative ligand binding site [chemical binding]; other site 269482014137 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482014138 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482014139 Walker A/P-loop; other site 269482014140 ATP binding site [chemical binding]; other site 269482014141 Q-loop/lid; other site 269482014142 ABC transporter signature motif; other site 269482014143 Walker B; other site 269482014144 D-loop; other site 269482014145 H-loop/switch region; other site 269482014146 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482014147 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482014148 TM-ABC transporter signature motif; other site 269482014149 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482014150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014151 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 269482014152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 269482014154 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482014155 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482014156 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482014157 putative active site [active] 269482014158 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482014159 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482014160 tetrameric interface [polypeptide binding]; other site 269482014161 NAD binding site [chemical binding]; other site 269482014162 catalytic residues [active] 269482014163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014164 Helix-turn-helix domains; Region: HTH; cl00088 269482014165 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482014166 putative effector binding pocket; other site 269482014167 dimerization interface [polypeptide binding]; other site 269482014168 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 269482014169 CPxP motif; other site 269482014170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482014171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014172 active site 269482014173 phosphorylation site [posttranslational modification] 269482014174 intermolecular recognition site; other site 269482014175 dimerization interface [polypeptide binding]; other site 269482014176 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482014177 DNA binding site [nucleotide binding] 269482014178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 269482014179 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 269482014180 FecR protein; Region: FecR; pfam04773 269482014181 CHASE2 domain; Region: CHASE2; cl01732 269482014182 sensory histidine kinase AtoS; Provisional; Region: PRK11360 269482014183 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482014184 dimer interface [polypeptide binding]; other site 269482014185 phosphorylation site [posttranslational modification] 269482014186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482014187 ATP binding site [chemical binding]; other site 269482014188 Mg2+ binding site [ion binding]; other site 269482014189 G-X-G motif; other site 269482014190 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 269482014191 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482014192 active site 269482014193 tetramer interface; other site 269482014194 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 269482014195 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269482014196 HIGH motif; other site 269482014197 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 269482014198 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269482014199 active site 269482014200 KMSKS motif; other site 269482014201 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 269482014202 tRNA binding surface [nucleotide binding]; other site 269482014203 anticodon binding site; other site 269482014204 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 269482014205 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 269482014206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014207 Family description; Region: UvrD_C_2; cl15862 269482014208 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 269482014209 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014210 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482014211 putative substrate translocation pore; other site 269482014212 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482014213 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482014214 dimer interface [polypeptide binding]; other site 269482014215 putative CheW interface [polypeptide binding]; other site 269482014216 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 269482014217 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014218 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014219 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 269482014220 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482014221 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 269482014222 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482014223 transcriptional regulator; Provisional; Region: PRK10632 269482014224 Helix-turn-helix domains; Region: HTH; cl00088 269482014225 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482014226 putative effector binding pocket; other site 269482014227 dimerization interface [polypeptide binding]; other site 269482014228 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 269482014229 putative active site [active] 269482014230 putative metal binding site [ion binding]; other site 269482014231 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482014232 FAD binding domain; Region: FAD_binding_4; pfam01565 269482014233 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 269482014234 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269482014235 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 269482014236 Protein of unknown function (DUF962); Region: DUF962; cl01879 269482014237 FOG: CBS domain [General function prediction only]; Region: COG0517 269482014238 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482014239 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 269482014240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482014241 putative acyl-acceptor binding pocket; other site 269482014242 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 269482014243 Tetramer interface [polypeptide binding]; other site 269482014244 active site 269482014245 FMN-binding site [chemical binding]; other site 269482014246 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482014247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482014248 DNA binding site [nucleotide binding] 269482014249 domain linker motif; other site 269482014250 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 269482014251 putative dimerization interface [polypeptide binding]; other site 269482014252 putative ligand binding site [chemical binding]; other site 269482014253 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482014254 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 269482014255 substrate binding site [chemical binding]; other site 269482014256 dimer interface [polypeptide binding]; other site 269482014257 ATP binding site [chemical binding]; other site 269482014258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014259 D-galactonate transporter; Region: 2A0114; TIGR00893 269482014260 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482014261 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482014262 inhibitor site; inhibition site 269482014263 active site 269482014264 dimer interface [polypeptide binding]; other site 269482014265 catalytic residue [active] 269482014266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014267 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482014268 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482014269 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 269482014270 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482014271 classical (c) SDRs; Region: SDR_c; cd05233 269482014272 NAD(P) binding site [chemical binding]; other site 269482014273 active site 269482014274 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482014275 active site 269482014276 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482014277 PAS domain; Region: PAS_9; pfam13426 269482014278 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482014279 DNA binding residues [nucleotide binding] 269482014280 dimerization interface [polypeptide binding]; other site 269482014281 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482014282 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482014283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014285 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 269482014286 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 269482014287 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482014288 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482014289 Helix-turn-helix domains; Region: HTH; cl00088 269482014290 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482014291 putative effector binding pocket; other site 269482014292 dimerization interface [polypeptide binding]; other site 269482014293 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482014294 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482014295 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 269482014296 homotrimer interaction site [polypeptide binding]; other site 269482014297 putative active site [active] 269482014298 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482014299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482014300 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 269482014301 synthetase active site [active] 269482014302 NTP binding site [chemical binding]; other site 269482014303 metal binding site [ion binding]; metal-binding site 269482014304 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 269482014305 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 269482014306 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 269482014307 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 269482014308 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 269482014309 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 269482014310 active site 269482014311 dimer interface [polypeptide binding]; other site 269482014312 motif 1; other site 269482014313 motif 2; other site 269482014314 motif 3; other site 269482014315 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 269482014316 anticodon binding site; other site 269482014317 translation initiation factor IF-3; Region: infC; TIGR00168 269482014318 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 269482014319 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 269482014320 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 269482014321 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 269482014322 23S rRNA binding site [nucleotide binding]; other site 269482014323 L21 binding site [polypeptide binding]; other site 269482014324 L13 binding site [polypeptide binding]; other site 269482014325 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 269482014326 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 269482014327 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 269482014328 dimer interface [polypeptide binding]; other site 269482014329 motif 1; other site 269482014330 active site 269482014331 motif 2; other site 269482014332 motif 3; other site 269482014333 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 269482014334 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 269482014335 putative tRNA-binding site [nucleotide binding]; other site 269482014336 B3/4 domain; Region: B3_4; cl11458 269482014337 tRNA synthetase B5 domain; Region: B5; cl08394 269482014338 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 269482014339 dimer interface [polypeptide binding]; other site 269482014340 motif 1; other site 269482014341 motif 3; other site 269482014342 motif 2; other site 269482014343 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 269482014344 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482014345 IHF dimer interface [polypeptide binding]; other site 269482014346 IHF - DNA interface [nucleotide binding]; other site 269482014347 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482014348 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 269482014349 DNA binding residues [nucleotide binding] 269482014350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482014351 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 269482014352 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 269482014353 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 269482014354 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 269482014355 putative active site [active] 269482014356 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482014357 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 269482014358 Helix-turn-helix domains; Region: HTH; cl00088 269482014359 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 269482014360 putative dimerization interface [polypeptide binding]; other site 269482014361 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 269482014362 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 269482014363 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482014364 RNA binding surface [nucleotide binding]; other site 269482014365 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 269482014366 probable active site [active] 269482014367 ribosome maturation protein RimP; Reviewed; Region: PRK00092 269482014368 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 269482014369 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 269482014370 Sm1 motif; other site 269482014371 predicted subunit interaction site [polypeptide binding]; other site 269482014372 RNA binding pocket [nucleotide binding]; other site 269482014373 Sm2 motif; other site 269482014374 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 269482014375 NusA N-terminal domain; Region: NusA_N; pfam08529 269482014376 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 269482014377 RNA binding site [nucleotide binding]; other site 269482014378 homodimer interface [polypeptide binding]; other site 269482014379 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 269482014380 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 269482014381 G-X-X-G motif; other site 269482014382 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 269482014383 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 269482014384 translation initiation factor IF-2; Validated; Region: infB; PRK05306 269482014385 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 269482014386 translation initiation factor IF-2; Region: IF-2; TIGR00487 269482014387 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 269482014388 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 269482014389 G1 box; other site 269482014390 putative GEF interaction site [polypeptide binding]; other site 269482014391 GTP/Mg2+ binding site [chemical binding]; other site 269482014392 Switch I region; other site 269482014393 G2 box; other site 269482014394 G3 box; other site 269482014395 Switch II region; other site 269482014396 G4 box; other site 269482014397 G5 box; other site 269482014398 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 269482014399 Translation-initiation factor 2; Region: IF-2; pfam11987 269482014400 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 269482014401 Ribosome-binding factor A; Region: RBFA; cl00542 269482014402 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 269482014403 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 269482014404 RNA binding site [nucleotide binding]; other site 269482014405 active site 269482014406 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 269482014407 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482014408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014409 putative substrate translocation pore; other site 269482014410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014411 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 269482014412 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014413 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014414 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482014415 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482014416 Helix-turn-helix domains; Region: HTH; cl00088 269482014417 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 269482014418 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 269482014419 G1 box; other site 269482014420 putative GEF interaction site [polypeptide binding]; other site 269482014421 GTP/Mg2+ binding site [chemical binding]; other site 269482014422 Switch I region; other site 269482014423 G2 box; other site 269482014424 G3 box; other site 269482014425 Switch II region; other site 269482014426 G4 box; other site 269482014427 G5 box; other site 269482014428 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 269482014429 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 269482014430 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 269482014431 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 269482014432 TPP-binding site [chemical binding]; other site 269482014433 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 269482014434 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 269482014435 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482014436 E3 interaction surface; other site 269482014437 lipoyl attachment site [posttranslational modification]; other site 269482014438 e3 binding domain; Region: E3_binding; pfam02817 269482014439 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 269482014440 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 269482014441 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482014442 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482014443 Predicted ATPase [General function prediction only]; Region: COG1485 269482014444 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014445 Walker A/P-loop; other site 269482014446 ATP binding site [chemical binding]; other site 269482014447 Q-loop/lid; other site 269482014448 Walker B; other site 269482014449 D-loop; other site 269482014450 H-loop/switch region; other site 269482014451 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482014452 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 269482014453 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482014454 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482014455 Surface antigen; Region: Bac_surface_Ag; cl03097 269482014456 Flp/Fap pilin component; Region: Flp_Fap; cl01585 269482014457 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 269482014458 TadE-like protein; Region: TadE; cl10688 269482014459 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482014460 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 269482014461 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 269482014462 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482014463 AAA domain; Region: AAA_31; pfam13614 269482014464 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482014465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014466 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482014467 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482014468 ATP binding site [chemical binding]; other site 269482014469 Walker A motif; other site 269482014470 hexamer interface [polypeptide binding]; other site 269482014471 Walker B motif; other site 269482014472 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482014473 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 269482014474 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 269482014475 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482014476 binding surface 269482014477 TPR motif; other site 269482014478 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 269482014479 Predicted membrane protein [Function unknown]; Region: COG4655 269482014480 TadE-like protein; Region: TadE; cl10688 269482014481 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482014482 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482014483 Walker A motif; other site 269482014484 ATP binding site [chemical binding]; other site 269482014485 Walker B motif; other site 269482014486 arginine finger; other site 269482014487 Helix-turn-helix domains; Region: HTH; cl00088 269482014488 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 269482014489 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 269482014490 Sm1 motif; other site 269482014491 D1 - D2 interaction site; other site 269482014492 D3 - B interaction site; other site 269482014493 Hfq - Hfq interaction site; other site 269482014494 RNA binding pocket [nucleotide binding]; other site 269482014495 Sm2 motif; other site 269482014496 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 269482014497 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 269482014498 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014499 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482014500 Helix-turn-helix domains; Region: HTH; cl00088 269482014501 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482014502 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 269482014503 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482014504 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482014505 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269482014506 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 269482014507 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482014508 putative ligand binding site [chemical binding]; other site 269482014509 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482014510 TM-ABC transporter signature motif; other site 269482014511 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482014512 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482014513 Walker A/P-loop; other site 269482014514 ATP binding site [chemical binding]; other site 269482014515 Q-loop/lid; other site 269482014516 ABC transporter signature motif; other site 269482014517 Walker B; other site 269482014518 D-loop; other site 269482014519 H-loop/switch region; other site 269482014520 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482014521 Helix-turn-helix domains; Region: HTH; cl00088 269482014522 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 269482014523 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 269482014524 ribonuclease R; Region: RNase_R; TIGR02063 269482014525 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 269482014526 RNB domain; Region: RNB; pfam00773 269482014527 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 269482014528 RNA binding site [nucleotide binding]; other site 269482014529 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 269482014530 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 269482014531 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269482014532 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 269482014533 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 269482014534 amidase catalytic site [active] 269482014535 Zn binding residues [ion binding]; other site 269482014536 substrate binding site [chemical binding]; other site 269482014537 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 269482014538 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 269482014539 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482014540 active site 269482014541 dimer interface [polypeptide binding]; other site 269482014542 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482014543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482014544 DNA-binding site [nucleotide binding]; DNA binding site 269482014545 FCD domain; Region: FCD; cl11656 269482014546 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482014547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014548 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482014549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014550 dimer interface [polypeptide binding]; other site 269482014551 conserved gate region; other site 269482014552 putative PBP binding loops; other site 269482014553 ABC-ATPase subunit interface; other site 269482014554 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482014555 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482014556 substrate binding pocket [chemical binding]; other site 269482014557 membrane-bound complex binding site; other site 269482014558 hinge residues; other site 269482014559 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 269482014560 quinone interaction residues [chemical binding]; other site 269482014561 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 269482014562 active site 269482014563 catalytic residues [active] 269482014564 FMN binding site [chemical binding]; other site 269482014565 substrate binding site [chemical binding]; other site 269482014566 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 269482014567 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 269482014568 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482014569 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482014570 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 269482014571 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 269482014572 nudix motif; other site 269482014573 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482014574 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 269482014575 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 269482014576 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482014577 substrate binding site [chemical binding]; other site 269482014578 oxyanion hole (OAH) forming residues; other site 269482014579 trimer interface [polypeptide binding]; other site 269482014580 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482014581 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 269482014582 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 269482014583 active site 269482014584 dimer interface [polypeptide binding]; other site 269482014585 non-prolyl cis peptide bond; other site 269482014586 insertion regions; other site 269482014587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014588 dimer interface [polypeptide binding]; other site 269482014589 conserved gate region; other site 269482014590 putative PBP binding loops; other site 269482014591 ABC-ATPase subunit interface; other site 269482014592 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482014593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014594 Walker A/P-loop; other site 269482014595 ATP binding site [chemical binding]; other site 269482014596 Q-loop/lid; other site 269482014597 ABC transporter signature motif; other site 269482014598 Walker B; other site 269482014599 D-loop; other site 269482014600 H-loop/switch region; other site 269482014601 TOBE domain; Region: TOBE_2; cl01440 269482014602 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 269482014603 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269482014604 FMN binding site [chemical binding]; other site 269482014605 active site 269482014606 catalytic residues [active] 269482014607 substrate binding site [chemical binding]; other site 269482014608 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482014609 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482014610 PAS domain; Region: PAS_9; pfam13426 269482014611 putative active site [active] 269482014612 heme pocket [chemical binding]; other site 269482014613 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482014614 PAS domain; Region: PAS_9; pfam13426 269482014615 putative active site [active] 269482014616 heme pocket [chemical binding]; other site 269482014617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 269482014618 Histidine kinase; Region: HisKA_3; pfam07730 269482014619 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 269482014620 Family of unknown function (DUF695); Region: DUF695; pfam05117 269482014621 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 269482014622 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 269482014623 putative dimer interface [polypeptide binding]; other site 269482014624 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269482014625 GAF domain; Region: GAF; cl15785 269482014626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482014627 metal binding site [ion binding]; metal-binding site 269482014628 active site 269482014629 I-site; other site 269482014630 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482014631 PLD-like domain; Region: PLDc_2; pfam13091 269482014632 putative active site [active] 269482014633 catalytic site [active] 269482014634 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482014635 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482014636 active site 269482014637 catalytic tetrad [active] 269482014638 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 269482014639 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482014640 active site residue [active] 269482014641 Predicted permease; Region: DUF318; pfam03773 269482014642 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 269482014643 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482014644 nodulation ABC transporter NodI; Provisional; Region: PRK13537 269482014645 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 269482014646 Walker A/P-loop; other site 269482014647 ATP binding site [chemical binding]; other site 269482014648 Q-loop/lid; other site 269482014649 ABC transporter signature motif; other site 269482014650 Walker B; other site 269482014651 D-loop; other site 269482014652 H-loop/switch region; other site 269482014653 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482014654 Ligand Binding Site [chemical binding]; other site 269482014655 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 269482014656 LexA repressor; Validated; Region: PRK00215 269482014657 Helix-turn-helix domains; Region: HTH; cl00088 269482014658 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482014659 Catalytic site [active] 269482014660 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014661 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482014662 sulfate transport protein; Provisional; Region: cysT; CHL00187 269482014663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014664 dimer interface [polypeptide binding]; other site 269482014665 conserved gate region; other site 269482014666 putative PBP binding loops; other site 269482014667 ABC-ATPase subunit interface; other site 269482014668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014669 dimer interface [polypeptide binding]; other site 269482014670 conserved gate region; other site 269482014671 putative PBP binding loops; other site 269482014672 ABC-ATPase subunit interface; other site 269482014673 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 269482014674 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 269482014675 Walker A/P-loop; other site 269482014676 ATP binding site [chemical binding]; other site 269482014677 Q-loop/lid; other site 269482014678 ABC transporter signature motif; other site 269482014679 Walker B; other site 269482014680 D-loop; other site 269482014681 H-loop/switch region; other site 269482014682 TOBE-like domain; Region: TOBE_3; pfam12857 269482014683 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 269482014684 Helix-turn-helix domains; Region: HTH; cl00088 269482014685 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 269482014686 substrate binding site [chemical binding]; other site 269482014687 dimerization interface [polypeptide binding]; other site 269482014688 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 269482014689 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482014690 ligand binding site [chemical binding]; other site 269482014691 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482014692 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 269482014693 Walker A/P-loop; other site 269482014694 ATP binding site [chemical binding]; other site 269482014695 Q-loop/lid; other site 269482014696 ABC transporter signature motif; other site 269482014697 Walker B; other site 269482014698 D-loop; other site 269482014699 H-loop/switch region; other site 269482014700 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 269482014701 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482014702 TM-ABC transporter signature motif; other site 269482014703 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482014704 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482014705 DNA binding site [nucleotide binding] 269482014706 domain linker motif; other site 269482014707 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 269482014708 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482014709 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 269482014710 substrate binding site [chemical binding]; other site 269482014711 dimer interface [polypeptide binding]; other site 269482014712 ATP binding site [chemical binding]; other site 269482014713 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 269482014714 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482014715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482014716 dimer interface [polypeptide binding]; other site 269482014717 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 269482014718 putative CheW interface [polypeptide binding]; other site 269482014719 PrkA family serine protein kinase; Provisional; Region: PRK15455 269482014720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014721 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 269482014722 Uncharacterized conserved protein [Function unknown]; Region: COG2718 269482014723 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482014724 SpoVR family protein; Provisional; Region: PRK11767 269482014725 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 269482014726 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 269482014727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014728 putative substrate translocation pore; other site 269482014729 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 269482014730 Rhomboid family; Region: Rhomboid; cl11446 269482014731 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482014732 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269482014733 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482014734 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482014735 substrate binding pocket [chemical binding]; other site 269482014736 membrane-bound complex binding site; other site 269482014737 hinge residues; other site 269482014738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014739 dimer interface [polypeptide binding]; other site 269482014740 conserved gate region; other site 269482014741 putative PBP binding loops; other site 269482014742 ABC-ATPase subunit interface; other site 269482014743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014744 dimer interface [polypeptide binding]; other site 269482014745 conserved gate region; other site 269482014746 putative PBP binding loops; other site 269482014747 ABC-ATPase subunit interface; other site 269482014748 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482014749 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 269482014750 Helix-turn-helix domains; Region: HTH; cl00088 269482014751 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 269482014752 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014753 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482014754 multidrug efflux protein; Reviewed; Region: PRK09577 269482014755 Protein export membrane protein; Region: SecD_SecF; cl14618 269482014756 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 269482014757 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 269482014758 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482014759 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482014760 MbtH-like protein; Region: MbtH; cl01279 269482014761 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 269482014762 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 269482014763 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 269482014764 Walker A/P-loop; other site 269482014765 ATP binding site [chemical binding]; other site 269482014766 Q-loop/lid; other site 269482014767 ABC transporter signature motif; other site 269482014768 Walker B; other site 269482014769 D-loop; other site 269482014770 H-loop/switch region; other site 269482014771 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 269482014772 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 269482014773 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269482014774 ABC-ATPase subunit interface; other site 269482014775 dimer interface [polypeptide binding]; other site 269482014776 putative PBP binding regions; other site 269482014777 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 269482014778 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 269482014779 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 269482014780 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 269482014781 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 269482014782 siderophore binding site; other site 269482014783 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 269482014784 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 269482014785 Walker A/P-loop; other site 269482014786 ATP binding site [chemical binding]; other site 269482014787 Q-loop/lid; other site 269482014788 ABC transporter signature motif; other site 269482014789 Walker B; other site 269482014790 D-loop; other site 269482014791 H-loop/switch region; other site 269482014792 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 269482014793 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014794 peptide synthase; Validated; Region: PRK05691 269482014795 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482014796 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482014797 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014798 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014799 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482014800 Condensation domain; Region: Condensation; pfam00668 269482014801 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 269482014802 peptide synthase; Provisional; Region: PRK12316 269482014803 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014804 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482014805 peptide synthase; Provisional; Region: PRK12467 269482014806 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482014807 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014808 AMP-binding enzyme; Region: AMP-binding; cl15778 269482014809 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482014810 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482014811 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 269482014812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014813 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 269482014814 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482014815 N-terminal plug; other site 269482014816 ligand-binding site [chemical binding]; other site 269482014817 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482014818 catalytic site [active] 269482014819 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 269482014820 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 269482014821 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482014822 Helix-turn-helix domains; Region: HTH; cl00088 269482014823 Integrase core domain; Region: rve; cl01316 269482014824 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482014825 active site 269482014826 substrate binding sites [chemical binding]; other site 269482014827 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482014828 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482014829 metal binding site [ion binding]; metal-binding site 269482014830 putative dimer interface [polypeptide binding]; other site 269482014831 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 269482014832 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 269482014833 catalytic triad [active] 269482014834 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 269482014835 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 269482014836 homodimer interface [polypeptide binding]; other site 269482014837 Walker A motif; other site 269482014838 ATP binding site [chemical binding]; other site 269482014839 hydroxycobalamin binding site [chemical binding]; other site 269482014840 Walker B motif; other site 269482014841 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 269482014842 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482014843 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482014844 High-affinity nickel-transport protein; Region: NicO; cl00964 269482014845 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 269482014846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014847 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 269482014848 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 269482014849 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269482014850 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269482014851 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 269482014852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482014853 Walker A motif; other site 269482014854 ATP binding site [chemical binding]; other site 269482014855 Walker B motif; other site 269482014856 arginine finger; other site 269482014857 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482014858 metal ion-dependent adhesion site (MIDAS); other site 269482014859 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 269482014860 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 269482014861 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 269482014862 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 269482014863 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482014864 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482014865 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482014866 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482014867 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 269482014868 precorrin-3B synthase; Region: CobG; TIGR02435 269482014869 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482014870 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482014871 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482014872 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482014873 CbiD; Region: CbiD; cl00828 269482014874 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 269482014875 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 269482014876 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482014877 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482014878 putative cyanate transporter; Provisional; Region: cynX; PRK09705 269482014879 Helix-turn-helix domains; Region: HTH; cl00088 269482014880 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 269482014881 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482014882 C-terminal domain interface [polypeptide binding]; other site 269482014883 GSH binding site (G-site) [chemical binding]; other site 269482014884 dimer interface [polypeptide binding]; other site 269482014885 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 269482014886 dimer interface [polypeptide binding]; other site 269482014887 N-terminal domain interface [polypeptide binding]; other site 269482014888 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482014889 FMN binding site [chemical binding]; other site 269482014890 substrate binding site [chemical binding]; other site 269482014891 putative catalytic residue [active] 269482014892 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 269482014893 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482014894 DNA binding residues [nucleotide binding] 269482014895 dimerization interface [polypeptide binding]; other site 269482014896 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482014897 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 269482014898 putative active site [active] 269482014899 catalytic triad [active] 269482014900 putative dimer interface [polypeptide binding]; other site 269482014901 amino acid transporter; Region: 2A0306; TIGR00909 269482014902 Spore germination protein; Region: Spore_permease; cl15802 269482014903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014904 Helix-turn-helix domains; Region: HTH; cl00088 269482014905 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 269482014906 putative substrate binding pocket [chemical binding]; other site 269482014907 putative dimerization interface [polypeptide binding]; other site 269482014908 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 269482014909 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482014910 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482014911 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 269482014912 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482014913 putative active site [active] 269482014914 putative metal binding site [ion binding]; other site 269482014915 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 269482014916 iron-sulfur cluster [ion binding]; other site 269482014917 [2Fe-2S] cluster binding site [ion binding]; other site 269482014918 hypothetical protein; Provisional; Region: PRK06847 269482014919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014920 Putative cyclase; Region: Cyclase; cl00814 269482014921 Cupin domain; Region: Cupin_2; cl09118 269482014922 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482014923 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482014924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014925 NAD(P) binding site [chemical binding]; other site 269482014926 active site 269482014927 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482014928 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482014929 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482014930 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482014931 active site 269482014932 DNA binding site [nucleotide binding] 269482014933 Int/Topo IB signature motif; other site 269482014934 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482014935 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 269482014936 High-affinity nickel-transport protein; Region: NicO; cl00964 269482014937 High-affinity nickel-transport protein; Region: NicO; cl00964 269482014938 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482014939 putative homodimer interface [polypeptide binding]; other site 269482014940 putative homotetramer interface [polypeptide binding]; other site 269482014941 putative metal binding site [ion binding]; other site 269482014942 putative homodimer-homodimer interface [polypeptide binding]; other site 269482014943 putative allosteric switch controlling residues; other site 269482014944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014945 dimer interface [polypeptide binding]; other site 269482014946 conserved gate region; other site 269482014947 putative PBP binding loops; other site 269482014948 ABC-ATPase subunit interface; other site 269482014949 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482014950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014951 Walker A/P-loop; other site 269482014952 ATP binding site [chemical binding]; other site 269482014953 Q-loop/lid; other site 269482014954 ABC transporter signature motif; other site 269482014955 Walker B; other site 269482014956 D-loop; other site 269482014957 H-loop/switch region; other site 269482014958 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014959 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482014960 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482014961 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482014962 active site 269482014963 metal binding site [ion binding]; metal-binding site 269482014964 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482014965 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482014966 active site residue [active] 269482014967 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482014968 Chromate transporter; Region: Chromate_transp; pfam02417 269482014969 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482014970 Chromate transporter; Region: Chromate_transp; pfam02417 269482014971 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482014972 Chromate transporter; Region: Chromate_transp; pfam02417 269482014973 Chromate transporter; Region: Chromate_transp; pfam02417 269482014974 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482014975 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482014976 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482014977 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482014978 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482014979 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 269482014980 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 269482014981 putative deacylase active site [active] 269482014982 YCII-related domain; Region: YCII; cl00999 269482014983 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 269482014984 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 269482014985 AAA domain; Region: AAA_33; pfam13671 269482014986 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482014987 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 269482014988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014989 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482014990 AsnC family; Region: AsnC_trans_reg; pfam01037 269482014991 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 269482014992 PGDYG protein; Region: PGDYG; pfam14083 269482014993 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482014994 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 269482014995 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482014996 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482014997 DNA binding site [nucleotide binding] 269482014998 domain linker motif; other site 269482014999 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 269482015000 putative ligand binding site [chemical binding]; other site 269482015001 putative dimerization interface [polypeptide binding]; other site 269482015002 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 269482015003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015005 D-galactonate transporter; Region: 2A0114; TIGR00893 269482015006 putative substrate translocation pore; other site 269482015007 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015008 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482015009 substrate binding site [chemical binding]; other site 269482015010 ATP binding site [chemical binding]; other site 269482015011 Helix-turn-helix domains; Region: HTH; cl00088 269482015012 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482015013 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482015014 putative dimerization interface [polypeptide binding]; other site 269482015015 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 269482015016 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 269482015017 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 269482015018 Cl- selectivity filter; other site 269482015019 Cl- binding residues [ion binding]; other site 269482015020 pore gating glutamate residue; other site 269482015021 dimer interface [polypeptide binding]; other site 269482015022 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 269482015023 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482015024 Helix-turn-helix domains; Region: HTH; cl00088 269482015025 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482015026 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482015027 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482015028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 269482015029 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482015030 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 269482015031 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482015032 DNA binding residues [nucleotide binding] 269482015033 putative dimer interface [polypeptide binding]; other site 269482015034 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482015035 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482015036 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 269482015037 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482015038 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015039 Walker A motif; other site 269482015040 ATP binding site [chemical binding]; other site 269482015041 Walker B motif; other site 269482015042 arginine finger; other site 269482015043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482015044 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482015045 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 269482015046 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482015047 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482015048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015049 dimer interface [polypeptide binding]; other site 269482015050 conserved gate region; other site 269482015051 putative PBP binding loops; other site 269482015052 ABC-ATPase subunit interface; other site 269482015053 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 269482015054 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015055 dimer interface [polypeptide binding]; other site 269482015056 conserved gate region; other site 269482015057 putative PBP binding loops; other site 269482015058 ABC-ATPase subunit interface; other site 269482015059 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 269482015060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015061 Walker A/P-loop; other site 269482015062 ATP binding site [chemical binding]; other site 269482015063 Q-loop/lid; other site 269482015064 ABC transporter signature motif; other site 269482015065 Walker B; other site 269482015066 D-loop; other site 269482015067 H-loop/switch region; other site 269482015068 TOBE domain; Region: TOBE_2; cl01440 269482015069 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 269482015070 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482015071 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 269482015072 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482015073 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 269482015074 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482015075 FMN binding site [chemical binding]; other site 269482015076 substrate binding site [chemical binding]; other site 269482015077 putative catalytic residue [active] 269482015078 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482015079 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482015080 NAD binding site [chemical binding]; other site 269482015081 catalytic residues [active] 269482015082 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482015083 Helix-turn-helix domains; Region: HTH; cl00088 269482015084 AsnC family; Region: AsnC_trans_reg; pfam01037 269482015085 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482015086 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 269482015087 putative NAD(P) binding site [chemical binding]; other site 269482015088 catalytic Zn binding site [ion binding]; other site 269482015089 structural Zn binding site [ion binding]; other site 269482015090 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 269482015091 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015092 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015093 ABC transporter; Region: ABC_tran_2; pfam12848 269482015094 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015095 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 269482015096 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 269482015097 AsmA-like C-terminal region; Region: AsmA_2; cl15864 269482015098 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 269482015099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015100 Walker A/P-loop; other site 269482015101 ATP binding site [chemical binding]; other site 269482015102 Q-loop/lid; other site 269482015103 ABC transporter signature motif; other site 269482015104 Walker B; other site 269482015105 D-loop; other site 269482015106 H-loop/switch region; other site 269482015107 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 269482015108 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 269482015109 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 269482015110 putative NAD(P) binding site [chemical binding]; other site 269482015111 dimer interface [polypeptide binding]; other site 269482015112 transcriptional activator TtdR; Provisional; Region: PRK09801 269482015113 Helix-turn-helix domains; Region: HTH; cl00088 269482015114 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482015115 putative effector binding pocket; other site 269482015116 dimerization interface [polypeptide binding]; other site 269482015117 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 269482015118 phosphoserine phosphatase SerB; Region: serB; TIGR00338 269482015119 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482015120 motif II; other site 269482015121 cystathionine beta-lyase; Provisional; Region: PRK07050 269482015122 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482015123 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482015124 catalytic residue [active] 269482015125 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482015126 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015127 substrate binding site [chemical binding]; other site 269482015128 ATP binding site [chemical binding]; other site 269482015129 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 269482015130 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269482015131 TRAM domain; Region: TRAM; cl01282 269482015132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 269482015133 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 269482015134 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 269482015135 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 269482015136 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482015137 NAD(P) binding site [chemical binding]; other site 269482015138 homotetramer interface [polypeptide binding]; other site 269482015139 homodimer interface [polypeptide binding]; other site 269482015140 active site 269482015141 putative acyltransferase; Provisional; Region: PRK05790 269482015142 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482015143 dimer interface [polypeptide binding]; other site 269482015144 active site 269482015145 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 269482015146 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 269482015147 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 269482015148 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 269482015149 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 269482015150 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482015151 RNA binding surface [nucleotide binding]; other site 269482015152 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 269482015153 active site 269482015154 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 269482015155 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269482015156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015157 DEAD_2; Region: DEAD_2; pfam06733 269482015158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015159 Protein of unknown function (DUF465); Region: DUF465; cl01070 269482015160 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 269482015161 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 269482015162 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 269482015163 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 269482015164 RNA binding site [nucleotide binding]; other site 269482015165 K+ potassium transporter; Region: K_trans; cl15781 269482015166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482015167 active site 269482015168 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 269482015169 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 269482015170 GDP-binding site [chemical binding]; other site 269482015171 ACT binding site; other site 269482015172 IMP binding site; other site 269482015173 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 269482015174 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 269482015175 dimer interface [polypeptide binding]; other site 269482015176 motif 1; other site 269482015177 active site 269482015178 motif 2; other site 269482015179 motif 3; other site 269482015180 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 269482015181 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 269482015182 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 269482015183 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 269482015184 HflK protein; Region: hflK; TIGR01933 269482015185 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 269482015186 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 269482015187 HflX GTPase family; Region: HflX; cd01878 269482015188 G1 box; other site 269482015189 GTP/Mg2+ binding site [chemical binding]; other site 269482015190 Switch I region; other site 269482015191 G2 box; other site 269482015192 G3 box; other site 269482015193 Switch II region; other site 269482015194 G4 box; other site 269482015195 G5 box; other site 269482015196 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 269482015197 Sm1 motif; other site 269482015198 intra - hexamer interaction site; other site 269482015199 inter - hexamer interaction site [polypeptide binding]; other site 269482015200 nucleotide binding pocket [chemical binding]; other site 269482015201 Sm2 motif; other site 269482015202 GTP-binding protein Der; Reviewed; Region: PRK00093 269482015203 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 269482015204 G1 box; other site 269482015205 GTP/Mg2+ binding site [chemical binding]; other site 269482015206 Switch I region; other site 269482015207 G2 box; other site 269482015208 Switch II region; other site 269482015209 G3 box; other site 269482015210 G4 box; other site 269482015211 G5 box; other site 269482015212 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 269482015213 G1 box; other site 269482015214 GTP/Mg2+ binding site [chemical binding]; other site 269482015215 Switch I region; other site 269482015216 G2 box; other site 269482015217 G3 box; other site 269482015218 Switch II region; other site 269482015219 G4 box; other site 269482015220 G5 box; other site 269482015221 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 269482015222 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 269482015223 Trp docking motif [polypeptide binding]; other site 269482015224 active site 269482015225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 269482015226 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 269482015227 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 269482015228 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 269482015229 dimer interface [polypeptide binding]; other site 269482015230 motif 1; other site 269482015231 active site 269482015232 motif 2; other site 269482015233 motif 3; other site 269482015234 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 269482015235 anticodon binding site; other site 269482015236 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 269482015237 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 269482015238 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 269482015239 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482015240 non-specific DNA binding site [nucleotide binding]; other site 269482015241 salt bridge; other site 269482015242 sequence-specific DNA binding site [nucleotide binding]; other site 269482015243 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 269482015244 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 269482015245 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482015246 FeS/SAM binding site; other site 269482015247 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 269482015248 active site 269482015249 multimer interface [polypeptide binding]; other site 269482015250 YccA-like proteins; Region: YccA_like; cd10433 269482015251 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 269482015252 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482015253 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482015254 putative catalytic site [active] 269482015255 putative metal binding site [ion binding]; other site 269482015256 putative phosphate binding site [ion binding]; other site 269482015257 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482015258 putative catalytic site [active] 269482015259 putative phosphate binding site [ion binding]; other site 269482015260 putative metal binding site [ion binding]; other site 269482015261 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 269482015262 active site 269482015263 catalytic site [active] 269482015264 substrate binding site [chemical binding]; other site 269482015265 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 269482015266 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 269482015267 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482015268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482015269 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482015270 DNA binding residues [nucleotide binding] 269482015271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482015272 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 269482015273 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 269482015274 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482015275 S-adenosylmethionine binding site [chemical binding]; other site 269482015276 Survival protein SurE; Region: SurE; cl00448 269482015277 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482015278 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482015279 recombination protein RecR; Reviewed; Region: recR; PRK00076 269482015280 RecR protein; Region: RecR; pfam02132 269482015281 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 269482015282 putative active site [active] 269482015283 putative metal-binding site [ion binding]; other site 269482015284 tetramer interface [polypeptide binding]; other site 269482015285 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 269482015286 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 269482015287 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015288 Walker A motif; other site 269482015289 ATP binding site [chemical binding]; other site 269482015290 Walker B motif; other site 269482015291 arginine finger; other site 269482015292 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 269482015293 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 269482015294 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482015295 catalytic residues [active] 269482015296 transcription termination factor Rho; Provisional; Region: rho; PRK09376 269482015297 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 269482015298 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 269482015299 RNA binding site [nucleotide binding]; other site 269482015300 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 269482015301 multimer interface [polypeptide binding]; other site 269482015302 Walker A motif; other site 269482015303 ATP binding site [chemical binding]; other site 269482015304 Walker B motif; other site 269482015305 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482015306 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482015307 DNA binding residues [nucleotide binding] 269482015308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015309 putative substrate translocation pore; other site 269482015310 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482015311 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 269482015312 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 269482015313 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482015314 multidrug efflux protein; Reviewed; Region: PRK01766 269482015315 MatE; Region: MatE; cl10513 269482015316 MatE; Region: MatE; cl10513 269482015317 lipoyl synthase; Provisional; Region: PRK12928 269482015318 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 269482015319 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482015320 E3 interaction surface; other site 269482015321 lipoyl attachment site [posttranslational modification]; other site 269482015322 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 269482015323 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 269482015324 alpha subunit interface [polypeptide binding]; other site 269482015325 TPP binding site [chemical binding]; other site 269482015326 heterodimer interface [polypeptide binding]; other site 269482015327 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482015328 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 269482015329 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 269482015330 tetramer interface [polypeptide binding]; other site 269482015331 TPP-binding site [chemical binding]; other site 269482015332 heterodimer interface [polypeptide binding]; other site 269482015333 phosphorylation loop region [posttranslational modification] 269482015334 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482015335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015336 NAD(P) binding site [chemical binding]; other site 269482015337 active site 269482015338 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269482015339 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269482015340 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482015341 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015342 Walker A motif; other site 269482015343 ATP binding site [chemical binding]; other site 269482015344 Walker B motif; other site 269482015345 arginine finger; other site 269482015346 Helix-turn-helix domains; Region: HTH; cl00088 269482015347 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482015348 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 269482015349 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 269482015350 DNA binding residues [nucleotide binding] 269482015351 putative dimer interface [polypeptide binding]; other site 269482015352 Protein of unknown function, DUF655; Region: DUF655; pfam04919 269482015353 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 269482015354 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 269482015355 Clp amino terminal domain; Region: Clp_N; pfam02861 269482015356 Clp amino terminal domain; Region: Clp_N; pfam02861 269482015357 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015358 Walker A motif; other site 269482015359 ATP binding site [chemical binding]; other site 269482015360 Walker B motif; other site 269482015361 arginine finger; other site 269482015362 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015363 Walker A motif; other site 269482015364 ATP binding site [chemical binding]; other site 269482015365 Walker B motif; other site 269482015366 arginine finger; other site 269482015367 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482015368 Helix-turn-helix domains; Region: HTH; cl00088 269482015369 Rrf2 family protein; Region: rrf2_super; TIGR00738 269482015370 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482015371 apolar tunnel; other site 269482015372 heme binding site [chemical binding]; other site 269482015373 dimerization interface [polypeptide binding]; other site 269482015374 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 269482015375 MoaE homodimer interface [polypeptide binding]; other site 269482015376 MoaD interaction [polypeptide binding]; other site 269482015377 active site residues [active] 269482015378 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 269482015379 MoaE interaction surface [polypeptide binding]; other site 269482015380 MoeB interaction surface [polypeptide binding]; other site 269482015381 thiocarboxylated glycine; other site 269482015382 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 269482015383 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 269482015384 dimer interface [polypeptide binding]; other site 269482015385 putative functional site; other site 269482015386 putative MPT binding site; other site 269482015387 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 269482015388 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 269482015389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482015390 catalytic residue [active] 269482015391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015392 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 269482015393 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 269482015394 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482015395 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482015396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482015397 homodimer interface [polypeptide binding]; other site 269482015398 catalytic residue [active] 269482015399 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 269482015400 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482015401 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 269482015402 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 269482015403 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 269482015404 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 269482015405 inhibitor-cofactor binding pocket; inhibition site 269482015406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482015407 catalytic residue [active] 269482015408 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 269482015409 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 269482015410 Ligand binding site; other site 269482015411 Putative Catalytic site; other site 269482015412 DXD motif; other site 269482015413 putative formyltransferase; Provisional; Region: PRK06988 269482015414 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482015415 active site 269482015416 substrate binding site [chemical binding]; other site 269482015417 cosubstrate binding site; other site 269482015418 catalytic site [active] 269482015419 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 269482015420 active site 269482015421 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 269482015422 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 269482015423 NAD binding site [chemical binding]; other site 269482015424 substrate binding site [chemical binding]; other site 269482015425 active site 269482015426 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 269482015427 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 269482015428 putative active site [active] 269482015429 putative catalytic site [active] 269482015430 putative Zn binding site [ion binding]; other site 269482015431 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 269482015432 catalytic triad [active] 269482015433 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 269482015434 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 269482015435 putative active site [active] 269482015436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015437 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 269482015438 NlpC/P60 family; Region: NLPC_P60; cl11438 269482015439 Phosphate transporter family; Region: PHO4; cl00396 269482015440 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 269482015441 replicative DNA helicase; Provisional; Region: PRK07004 269482015442 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482015443 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482015444 Walker A motif; other site 269482015445 ATP binding site [chemical binding]; other site 269482015446 Walker B motif; other site 269482015447 DNA binding loops [nucleotide binding] 269482015448 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 269482015449 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 269482015450 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 269482015451 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 269482015452 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 269482015453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015454 Helix-turn-helix domains; Region: HTH; cl00088 269482015455 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482015456 putative effector binding pocket; other site 269482015457 dimerization interface [polypeptide binding]; other site 269482015458 glyoxylate carboligase; Provisional; Region: PRK11269 269482015459 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482015460 PYR/PP interface [polypeptide binding]; other site 269482015461 dimer interface [polypeptide binding]; other site 269482015462 TPP binding site [chemical binding]; other site 269482015463 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482015464 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 269482015465 TPP-binding site [chemical binding]; other site 269482015466 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 269482015467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015468 tartronate semialdehyde reductase; Provisional; Region: PRK15059 269482015469 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 269482015470 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482015471 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 269482015472 active site 269482015473 homodimer interface [polypeptide binding]; other site 269482015474 homotetramer interface [polypeptide binding]; other site 269482015475 psiF repeat; Region: PsiF_repeat; pfam07769 269482015476 psiF repeat; Region: PsiF_repeat; pfam07769 269482015477 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 269482015478 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482015479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482015480 putative ADP-binding pocket [chemical binding]; other site 269482015481 Predicted ATPase [General function prediction only]; Region: COG4637 269482015482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015483 Walker A/P-loop; other site 269482015484 ATP binding site [chemical binding]; other site 269482015485 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482015486 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482015487 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482015488 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482015489 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 269482015490 active site 269482015491 DNA polymerase III subunit delta'; Validated; Region: PRK06964 269482015492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482015493 thymidylate kinase; Validated; Region: tmk; PRK00698 269482015494 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 269482015495 TMP-binding site; other site 269482015496 ATP-binding site [chemical binding]; other site 269482015497 YceG-like family; Region: YceG; pfam02618 269482015498 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 269482015499 dimerization interface [polypeptide binding]; other site 269482015500 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 269482015501 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 269482015502 NRDE protein; Region: NRDE; cl01315 269482015503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482015504 Coenzyme A binding pocket [chemical binding]; other site 269482015505 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482015506 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482015507 substrate binding pocket [chemical binding]; other site 269482015508 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482015509 MULE transposase domain; Region: MULE; pfam10551 269482015510 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482015511 CoenzymeA binding site [chemical binding]; other site 269482015512 subunit interaction site [polypeptide binding]; other site 269482015513 PHB binding site; other site 269482015514 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 269482015515 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482015516 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482015517 Helix-turn-helix domains; Region: HTH; cl00088 269482015518 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482015519 putative active site [active] 269482015520 catalytic site [active] 269482015521 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 269482015522 homotrimer interaction site [polypeptide binding]; other site 269482015523 putative active site [active] 269482015524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482015525 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482015526 Right handed beta helix region; Region: Beta_helix; pfam13229 269482015527 Right handed beta helix region; Region: Beta_helix; pfam13229 269482015528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482015529 metal binding site [ion binding]; metal-binding site 269482015530 active site 269482015531 I-site; other site 269482015532 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 269482015533 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482015534 dimer interface [polypeptide binding]; other site 269482015535 active site 269482015536 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 269482015537 catalytic triad [active] 269482015538 metal binding site [ion binding]; metal-binding site 269482015539 conserved cis-peptide bond; other site 269482015540 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482015541 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 269482015542 substrate binding site [chemical binding]; other site 269482015543 oxyanion hole (OAH) forming residues; other site 269482015544 trimer interface [polypeptide binding]; other site 269482015545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015546 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482015547 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482015548 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 269482015549 AMP-binding enzyme; Region: AMP-binding; cl15778 269482015550 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482015551 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 269482015552 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 269482015553 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 269482015554 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 269482015555 Intracellular septation protein A; Region: IspA; cl01098 269482015556 BolA-like protein; Region: BolA; cl00386 269482015557 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482015558 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482015559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482015560 Coenzyme A binding pocket [chemical binding]; other site 269482015561 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 269482015562 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 269482015563 dimerization interface [polypeptide binding]; other site 269482015564 ATP binding site [chemical binding]; other site 269482015565 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 269482015566 dimerization interface [polypeptide binding]; other site 269482015567 ATP binding site [chemical binding]; other site 269482015568 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 269482015569 putative active site [active] 269482015570 catalytic triad [active] 269482015571 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 269482015572 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 269482015573 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 269482015574 putative substrate binding site [chemical binding]; other site 269482015575 putative ATP binding site [chemical binding]; other site 269482015576 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 269482015577 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 269482015578 active site 269482015579 dimer interface [polypeptide binding]; other site 269482015580 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 269482015581 dimer interface [polypeptide binding]; other site 269482015582 active site 269482015583 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 269482015584 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269482015585 Walker A/P-loop; other site 269482015586 ATP binding site [chemical binding]; other site 269482015587 Q-loop/lid; other site 269482015588 ABC transporter signature motif; other site 269482015589 Walker B; other site 269482015590 D-loop; other site 269482015591 H-loop/switch region; other site 269482015592 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 269482015593 active site 269482015594 catalytic triad [active] 269482015595 oxyanion hole [active] 269482015596 switch loop; other site 269482015597 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482015598 periplasmic folding chaperone; Provisional; Region: PRK10788 269482015599 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482015600 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 269482015601 Found in ATP-dependent protease La (LON); Region: LON; smart00464 269482015602 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015603 Walker A motif; other site 269482015604 ATP binding site [chemical binding]; other site 269482015605 Walker B motif; other site 269482015606 arginine finger; other site 269482015607 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 269482015608 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 269482015609 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 269482015610 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015611 Walker A motif; other site 269482015612 ATP binding site [chemical binding]; other site 269482015613 Walker B motif; other site 269482015614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482015615 Clp protease; Region: CLP_protease; pfam00574 269482015616 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269482015617 oligomer interface [polypeptide binding]; other site 269482015618 active site residues [active] 269482015619 trigger factor; Provisional; Region: tig; PRK01490 269482015620 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269482015621 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 269482015622 Glycerate kinase family; Region: Gly_kinase; cl00841 269482015623 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482015624 Helix-turn-helix domains; Region: HTH; cl00088 269482015625 Helix-turn-helix domains; Region: HTH; cl00088 269482015626 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 269482015627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015628 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482015629 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482015630 active site lid residues [active] 269482015631 substrate binding pocket [chemical binding]; other site 269482015632 catalytic residues [active] 269482015633 substrate-Mg2+ binding site; other site 269482015634 aspartate-rich region 1; other site 269482015635 aspartate-rich region 2; other site 269482015636 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 269482015637 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 269482015638 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482015639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482015640 active site 269482015641 phosphorylation site [posttranslational modification] 269482015642 intermolecular recognition site; other site 269482015643 dimerization interface [polypeptide binding]; other site 269482015644 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482015645 DNA binding site [nucleotide binding] 269482015646 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 269482015647 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482015648 dimer interface [polypeptide binding]; other site 269482015649 phosphorylation site [posttranslational modification] 269482015650 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482015651 ATP binding site [chemical binding]; other site 269482015652 Mg2+ binding site [ion binding]; other site 269482015653 G-X-G motif; other site 269482015654 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269482015655 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 269482015656 dimer interface [polypeptide binding]; other site 269482015657 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482015658 catalytic triad [active] 269482015659 peroxidatic and resolving cysteines [active] 269482015660 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 269482015661 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482015662 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 269482015663 homotrimer interaction site [polypeptide binding]; other site 269482015664 zinc binding site [ion binding]; other site 269482015665 CDP-binding sites; other site 269482015666 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 269482015667 substrate binding site; other site 269482015668 dimer interface; other site 269482015669 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 269482015670 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 269482015671 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482015672 ATP binding site [chemical binding]; other site 269482015673 putative Mg++ binding site [ion binding]; other site 269482015674 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482015675 nucleotide binding region [chemical binding]; other site 269482015676 ATP-binding site [chemical binding]; other site 269482015677 TRCF domain; Region: TRCF; cl04088 269482015678 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 269482015679 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 269482015680 metal binding site [ion binding]; metal-binding site 269482015681 putative dimer interface [polypeptide binding]; other site 269482015682 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269482015683 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482015684 tetramer interface [polypeptide binding]; other site 269482015685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482015686 catalytic residue [active] 269482015687 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 269482015688 Transglycosylase; Region: Transgly; cl07896 269482015689 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482015690 PspA/IM30 family; Region: PspA_IM30; pfam04012 269482015691 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482015692 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 269482015693 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 269482015694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015695 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 269482015696 Dodecin; Region: Dodecin; cl01328 269482015697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015698 Helix-turn-helix domains; Region: HTH; cl00088 269482015699 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 269482015700 putative substrate binding pocket [chemical binding]; other site 269482015701 putative dimerization interface [polypeptide binding]; other site 269482015702 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 269482015703 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 269482015704 active site 269482015705 putative substrate binding pocket [chemical binding]; other site 269482015706 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 269482015707 active site 269482015708 homotetramer interface [polypeptide binding]; other site 269482015709 Predicted membrane protein [Function unknown]; Region: COG3748 269482015710 Protein of unknown function (DUF989); Region: DUF989; pfam06181 269482015711 Cytochrome c; Region: Cytochrom_C; cl11414 269482015712 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 269482015713 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 269482015714 allantoicase; Provisional; Region: PRK13257 269482015715 Allantoicase repeat; Region: Allantoicase; pfam03561 269482015716 Allantoicase repeat; Region: Allantoicase; pfam03561 269482015717 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 269482015718 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 269482015719 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 269482015720 active site 269482015721 catalytic site [active] 269482015722 tetramer interface [polypeptide binding]; other site 269482015723 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 269482015724 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 269482015725 Na binding site [ion binding]; other site 269482015726 putative substrate binding site [chemical binding]; other site 269482015727 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482015728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482015729 DNA-binding site [nucleotide binding]; DNA binding site 269482015730 FCD domain; Region: FCD; cl11656 269482015731 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 269482015732 dimer interface [polypeptide binding]; other site 269482015733 catalytic triad [active] 269482015734 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 269482015735 nucleoside/Zn binding site; other site 269482015736 dimer interface [polypeptide binding]; other site 269482015737 catalytic motif [active] 269482015738 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 269482015739 GMP synthase; Reviewed; Region: guaA; PRK00074 269482015740 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 269482015741 AMP/PPi binding site [chemical binding]; other site 269482015742 candidate oxyanion hole; other site 269482015743 catalytic triad [active] 269482015744 potential glutamine specificity residues [chemical binding]; other site 269482015745 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 269482015746 ATP Binding subdomain [chemical binding]; other site 269482015747 Ligand Binding sites [chemical binding]; other site 269482015748 Dimerization subdomain; other site 269482015749 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 269482015750 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 269482015751 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 269482015752 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 269482015753 active site 269482015754 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 269482015755 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482015756 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 269482015757 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 269482015758 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 269482015759 putative coenzyme Q binding site [chemical binding]; other site 269482015760 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 269482015761 SmpB-tmRNA interface; other site 269482015762 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 269482015763 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 269482015764 phosphoenolpyruvate synthase; Validated; Region: PRK06464 269482015765 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 269482015766 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 269482015767 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482015768 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 269482015769 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 269482015770 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269482015771 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 269482015772 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482015773 active site 269482015774 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 269482015775 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 269482015776 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 269482015777 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 269482015778 active site 269482015779 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 269482015780 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 269482015781 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 269482015782 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 269482015783 trimer interface [polypeptide binding]; other site 269482015784 active site 269482015785 UDP-GlcNAc binding site [chemical binding]; other site 269482015786 lipid binding site [chemical binding]; lipid-binding site 269482015787 periplasmic chaperone; Provisional; Region: PRK10780 269482015788 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 269482015789 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 269482015790 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482015791 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482015792 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482015793 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482015794 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482015795 Surface antigen; Region: Bac_surface_Ag; cl03097 269482015796 zinc metallopeptidase RseP; Provisional; Region: PRK10779 269482015797 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 269482015798 active site 269482015799 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 269482015800 protein binding site [polypeptide binding]; other site 269482015801 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 269482015802 putative substrate binding region [chemical binding]; other site 269482015803 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 269482015804 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 269482015805 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 269482015806 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 269482015807 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 269482015808 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 269482015809 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 269482015810 catalytic residue [active] 269482015811 putative FPP diphosphate binding site; other site 269482015812 putative FPP binding hydrophobic cleft; other site 269482015813 dimer interface [polypeptide binding]; other site 269482015814 putative IPP diphosphate binding site; other site 269482015815 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 269482015816 hinge region; other site 269482015817 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 269482015818 putative nucleotide binding site [chemical binding]; other site 269482015819 uridine monophosphate binding site [chemical binding]; other site 269482015820 homohexameric interface [polypeptide binding]; other site 269482015821 elongation factor Ts; Provisional; Region: tsf; PRK09377 269482015822 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 269482015823 Elongation factor TS; Region: EF_TS; pfam00889 269482015824 Elongation factor TS; Region: EF_TS; pfam00889 269482015825 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 269482015826 rRNA interaction site [nucleotide binding]; other site 269482015827 S8 interaction site; other site 269482015828 putative laminin-1 binding site; other site 269482015829 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 269482015830 active site 269482015831 PII uridylyl-transferase; Provisional; Region: PRK03059 269482015832 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482015833 metal binding triad; other site 269482015834 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482015835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482015836 Zn2+ binding site [ion binding]; other site 269482015837 Mg2+ binding site [ion binding]; other site 269482015838 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 269482015839 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 269482015840 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 269482015841 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482015842 RNA binding surface [nucleotide binding]; other site 269482015843 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 269482015844 active site 269482015845 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 269482015846 active site 269482015847 catalytic residues [active] 269482015848 metal binding site [ion binding]; metal-binding site 269482015849 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 269482015850 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 269482015851 nucleotide binding pocket [chemical binding]; other site 269482015852 K-X-D-G motif; other site 269482015853 catalytic site [active] 269482015854 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 269482015855 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 269482015856 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 269482015857 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 269482015858 Dimer interface [polypeptide binding]; other site 269482015859 BRCT sequence motif; other site 269482015860 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 269482015861 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482015862 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 269482015863 Walker A/P-loop; other site 269482015864 ATP binding site [chemical binding]; other site 269482015865 Q-loop/lid; other site 269482015866 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 269482015867 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 269482015868 Q-loop/lid; other site 269482015869 ABC transporter signature motif; other site 269482015870 Walker B; other site 269482015871 D-loop; other site 269482015872 H-loop/switch region; other site 269482015873 EamA-like transporter family; Region: EamA; cl01037 269482015874 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 269482015875 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482015876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482015877 homodimer interface [polypeptide binding]; other site 269482015878 catalytic residue [active] 269482015879 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 269482015880 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 269482015881 trimer interface [polypeptide binding]; other site 269482015882 active site 269482015883 substrate binding site [chemical binding]; other site 269482015884 CoA binding site [chemical binding]; other site 269482015885 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 269482015886 ArsC family; Region: ArsC; pfam03960 269482015887 putative catalytic residues [active] 269482015888 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 269482015889 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 269482015890 metal binding site [ion binding]; metal-binding site 269482015891 dimer interface [polypeptide binding]; other site 269482015892 HemK family putative methylases; Region: hemK_fam; TIGR00536 269482015893 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482015894 S-adenosylmethionine binding site [chemical binding]; other site 269482015895 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 269482015896 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 269482015897 putative active site [active] 269482015898 catalytic site [active] 269482015899 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482015900 putative active site [active] 269482015901 catalytic site [active] 269482015902 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 269482015903 catalytic residues [active] 269482015904 dimer interface [polypeptide binding]; other site 269482015905 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 269482015906 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015907 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015908 ABC transporter; Region: ABC_tran_2; pfam12848 269482015909 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482015910 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 269482015911 DNA repair protein RadA; Provisional; Region: PRK11823 269482015912 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 269482015913 Walker A motif/ATP binding site; other site 269482015914 ATP binding site [chemical binding]; other site 269482015915 Walker B motif; other site 269482015916 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 269482015917 alanine racemase; Reviewed; Region: dadX; PRK03646 269482015918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482015919 active site 269482015920 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482015921 substrate binding site [chemical binding]; other site 269482015922 catalytic residues [active] 269482015923 dimer interface [polypeptide binding]; other site 269482015924 lysophospholipid transporter LplT; Provisional; Region: PRK11195 269482015925 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 269482015926 dimer interface [polypeptide binding]; other site 269482015927 substrate binding site [chemical binding]; other site 269482015928 ATP binding site [chemical binding]; other site 269482015929 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 269482015930 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 269482015931 Fe-S cluster binding site [ion binding]; other site 269482015932 active site 269482015933 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 269482015934 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482015935 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 269482015936 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 269482015937 acyl-CoA binding pocket [chemical binding]; other site 269482015938 CoA binding site [chemical binding]; other site 269482015939 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482015940 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482015941 ATP binding site [chemical binding]; other site 269482015942 Mg++ binding site [ion binding]; other site 269482015943 motif III; other site 269482015944 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482015945 nucleotide binding region [chemical binding]; other site 269482015946 ATP-binding site [chemical binding]; other site 269482015947 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 269482015948 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482015949 tetramer interface [polypeptide binding]; other site 269482015950 active site 269482015951 Mg2+/Mn2+ binding site [ion binding]; other site 269482015952 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482015953 Ligand Binding Site [chemical binding]; other site 269482015954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015955 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482015956 putative effector binding pocket; other site 269482015957 dimerization interface [polypeptide binding]; other site 269482015958 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 269482015959 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482015960 malate synthase A; Region: malate_syn_A; TIGR01344 269482015961 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 269482015962 active site 269482015963 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269482015964 putative active site pocket [active] 269482015965 dimerization interface [polypeptide binding]; other site 269482015966 putative catalytic residue [active] 269482015967 Cupin domain; Region: Cupin_2; cl09118 269482015968 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482015969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482015970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482015971 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482015972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482015973 Coenzyme A binding pocket [chemical binding]; other site 269482015974 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 269482015975 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269482015976 active site 269482015977 HIGH motif; other site 269482015978 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269482015979 active site 269482015980 KMSKS motif; other site 269482015981 hypothetical protein; Provisional; Region: PRK10279 269482015982 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 269482015983 nucleophile elbow; other site 269482015984 NlpC/P60 family; Region: NLPC_P60; cl11438 269482015985 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 269482015986 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482015987 Walker A/P-loop; other site 269482015988 ATP binding site [chemical binding]; other site 269482015989 Q-loop/lid; other site 269482015990 ABC transporter signature motif; other site 269482015991 Walker B; other site 269482015992 D-loop; other site 269482015993 H-loop/switch region; other site 269482015994 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482015995 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482015996 Walker A/P-loop; other site 269482015997 ATP binding site [chemical binding]; other site 269482015998 Q-loop/lid; other site 269482015999 ABC transporter signature motif; other site 269482016000 Walker B; other site 269482016001 D-loop; other site 269482016002 H-loop/switch region; other site 269482016003 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482016004 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 269482016005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482016006 dimer interface [polypeptide binding]; other site 269482016007 conserved gate region; other site 269482016008 putative PBP binding loops; other site 269482016009 ABC-ATPase subunit interface; other site 269482016010 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 269482016011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482016012 dimer interface [polypeptide binding]; other site 269482016013 conserved gate region; other site 269482016014 putative PBP binding loops; other site 269482016015 ABC-ATPase subunit interface; other site 269482016016 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 269482016017 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 269482016018 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 269482016019 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 269482016020 Subunit I/III interface [polypeptide binding]; other site 269482016021 Subunit III/IV interface [polypeptide binding]; other site 269482016022 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482016023 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482016024 D-pathway; other site 269482016025 Putative ubiquinol binding site [chemical binding]; other site 269482016026 Low-spin heme (heme b) binding site [chemical binding]; other site 269482016027 Putative water exit pathway; other site 269482016028 Binuclear center (heme o3/CuB) [ion binding]; other site 269482016029 K-pathway; other site 269482016030 Putative proton exit pathway; other site 269482016031 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 269482016032 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482016033 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 269482016034 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 269482016035 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269482016036 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; cl05288 269482016037 aspartate kinase; Reviewed; Region: PRK06635 269482016038 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 269482016039 putative nucleotide binding site [chemical binding]; other site 269482016040 putative catalytic residues [active] 269482016041 putative Mg ion binding site [ion binding]; other site 269482016042 putative aspartate binding site [chemical binding]; other site 269482016043 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 269482016044 putative allosteric regulatory site; other site 269482016045 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 269482016046 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 269482016047 Ligand Binding Site [chemical binding]; other site 269482016048 TilS substrate binding domain; Region: TilS; pfam09179 269482016049 B3/4 domain; Region: B3_4; cl11458 269482016050 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 269482016051 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 269482016052 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482016053 endonuclease III; Region: ENDO3c; smart00478 269482016054 minor groove reading motif; other site 269482016055 helix-hairpin-helix signature motif; other site 269482016056 substrate binding pocket [chemical binding]; other site 269482016057 active site 269482016058 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 269482016059 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269482016060 active site 269482016061 HIGH motif; other site 269482016062 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269482016063 KMSKS motif; other site 269482016064 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 269482016065 tRNA binding surface [nucleotide binding]; other site 269482016066 anticodon binding site; other site 269482016067 TPR repeat; Region: TPR_11; pfam13414 269482016068 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482016069 binding surface 269482016070 TPR motif; other site 269482016071 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 269482016072 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 269482016073 substrate binding site [chemical binding]; other site 269482016074 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 269482016075 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 269482016076 substrate binding site [chemical binding]; other site 269482016077 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482016078 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 269482016079 putative active site [active] 269482016080 putative metal binding site [ion binding]; other site 269482016081 serine O-acetyltransferase; Region: cysE; TIGR01172 269482016082 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482016083 trimer interface [polypeptide binding]; other site 269482016084 active site 269482016085 substrate binding site [chemical binding]; other site 269482016086 CoA binding site [chemical binding]; other site 269482016087 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 269482016088 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269482016089 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 269482016090 active site 269482016091 dimerization interface [polypeptide binding]; other site 269482016092 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 269482016093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482016094 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 269482016095 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016096 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016097 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016098 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016099 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016100 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 269482016101 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482016102 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482016103 Protein of unknown function DUF91; Region: DUF91; cl00709 269482016104 PAAR motif; Region: PAAR_motif; cl15808 269482016105 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482016106 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 269482016107 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016108 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016109 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016110 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016111 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016112 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482016113 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 269482016114 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482016115 generic binding surface II; other site 269482016116 generic binding surface I; other site 269482016117 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482016118 active site 269482016119 DNA binding site [nucleotide binding] 269482016120 Cell division inhibitor SulA; Region: SulA; cl01880 269482016121 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 269482016122 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 269482016123 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 269482016124 TIGR02687 family protein; Region: TIGR02687 269482016125 PglZ domain; Region: PglZ; pfam08665 269482016126 Helix-turn-helix domains; Region: HTH; cl00088 269482016127 Winged helix-turn helix; Region: HTH_29; pfam13551 269482016128 Helix-turn-helix domains; Region: HTH; cl00088 269482016129 Winged helix-turn helix; Region: HTH_33; pfam13592 269482016130 Integrase core domain; Region: rve; cl01316 269482016131 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482016132 Helix-turn-helix domains; Region: HTH; cl00088 269482016133 Integrase core domain; Region: rve; cl01316 269482016134 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 269482016135 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 269482016136 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016137 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016138 Domain of unknown function (DUF927); Region: DUF927; cl12098 269482016139 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016140 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016141 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016142 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 269482016143 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 269482016144 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482016145 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482016146 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482016147 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 269482016148 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 269482016149 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016150 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 269482016151 Transposase domain (DUF772); Region: DUF772; pfam05598 269482016152 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482016153 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482016154 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 269482016155 TrwC relaxase; Region: TrwC; pfam08751 269482016156 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 269482016157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482016158 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 269482016159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482016160 AAA-like domain; Region: AAA_10; pfam12846 269482016161 Walker A motif; other site 269482016162 ATP binding site [chemical binding]; other site 269482016163 Walker B motif; other site 269482016164 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482016165 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016166 Walker A motif; other site 269482016167 ATP binding site [chemical binding]; other site 269482016168 Integrase core domain; Region: rve; cl01316 269482016169 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016170 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016171 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016172 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016173 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016174 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016175 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016176 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016177 Helix-turn-helix domains; Region: HTH; cl00088 269482016178 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016179 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016180 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016181 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016182 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016183 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016184 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016185 Helix-turn-helix domains; Region: HTH; cl00088 269482016186 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482016187 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482016188 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482016189 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482016190 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016191 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016192 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016193 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016194 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016195 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016196 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016197 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016198 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016199 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 269482016200 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482016201 Family description; Region: UvrD_C_2; cl15862 269482016202 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016203 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016204 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016205 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016206 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016207 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 269482016208 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482016209 active site 269482016210 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016211 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016212 Abortive infection C-terminus; Region: Abi_C; pfam14355 269482016213 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 269482016214 putative uracil binding site [chemical binding]; other site 269482016215 putative active site [active] 269482016216 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 269482016217 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 269482016218 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 269482016219 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016220 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016221 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016222 Methyltransferase domain; Region: Methyltransf_27; pfam13708 269482016223 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482016224 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016225 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016226 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016227 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016228 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016229 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016230 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016231 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016232 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016233 DNA topoisomerase III; Provisional; Region: PRK07726 269482016234 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482016235 active site 269482016236 putative interdomain interaction site [polypeptide binding]; other site 269482016237 putative metal-binding site [ion binding]; other site 269482016238 putative nucleotide binding site [chemical binding]; other site 269482016239 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482016240 domain I; other site 269482016241 DNA binding groove [nucleotide binding] 269482016242 phosphate binding site [ion binding]; other site 269482016243 domain II; other site 269482016244 domain III; other site 269482016245 nucleotide binding site [chemical binding]; other site 269482016246 catalytic site [active] 269482016247 domain IV; other site 269482016248 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 269482016249 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016250 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016251 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016252 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016253 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016254 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016255 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016256 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016257 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 269482016258 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016259 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016260 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016261 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016262 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016263 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016264 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016265 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016266 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016267 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016268 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016269 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016270 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016271 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016272 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016273 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016274 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016275 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016276 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016277 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016278 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016279 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016280 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016281 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016282 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016283 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016284 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016285 cofactor binding site; other site 269482016286 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016287 DNA binding site [nucleotide binding] 269482016288 substrate interaction site [chemical binding]; other site 269482016289 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016290 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016291 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016292 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016293 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016294 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016295 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016296 Transposase domain (DUF772); Region: DUF772; pfam05598 269482016297 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482016298 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482016299 virion protein; Provisional; Region: V; PHA02564 269482016300 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 269482016301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269482016302 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482016303 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482016304 putative major pilin subunit; Provisional; Region: PRK10574 269482016305 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016306 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016307 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016308 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016309 Pilin (bacterial filament); Region: Pilin; pfam00114 269482016310 putative major pilin subunit; Provisional; Region: PRK10574 269482016311 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 269482016312 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482016313 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016314 cofactor binding site; other site 269482016315 DNA binding site [nucleotide binding] 269482016316 substrate interaction site [chemical binding]; other site 269482016317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482016318 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016319 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016320 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016321 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482016322 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482016323 active site 269482016324 Int/Topo IB signature motif; other site 269482016325 DNA binding site [nucleotide binding] 269482016326 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 269482016327 MutS domain I; Region: MutS_I; pfam01624 269482016328 MutS domain II; Region: MutS_II; pfam05188 269482016329 MutS family domain IV; Region: MutS_IV; pfam05190 269482016330 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 269482016331 Walker A/P-loop; other site 269482016332 ATP binding site [chemical binding]; other site 269482016333 Q-loop/lid; other site 269482016334 ABC transporter signature motif; other site 269482016335 Walker B; other site 269482016336 D-loop; other site 269482016337 H-loop/switch region; other site 269482016338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 269482016339 active site 269482016340 metal binding site [ion binding]; metal-binding site 269482016341 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269482016342 Cupin superfamily protein; Region: Cupin_4; pfam08007 269482016343 Cupin domain; Region: Cupin_2; cl09118 269482016344 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482016345 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 269482016346 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 269482016347 dihydrodipicolinate synthase; Region: dapA; TIGR00674 269482016348 dimer interface [polypeptide binding]; other site 269482016349 active site 269482016350 catalytic residue [active] 269482016351 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 269482016352 active site 269482016353 HIGH motif; other site 269482016354 dimer interface [polypeptide binding]; other site 269482016355 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482016356 active site 269482016357 KMSKS motif; other site 269482016358 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 269482016359 active site 269482016360 putative substrate binding region [chemical binding]; other site 269482016361 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 269482016362 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 269482016363 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482016364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482016365 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482016366 dinuclear metal binding motif [ion binding]; other site 269482016367 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 269482016368 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 269482016369 trimer interface [polypeptide binding]; other site 269482016370 putative metal binding site [ion binding]; other site 269482016371 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 269482016372 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 269482016373 dimerization interface [polypeptide binding]; other site 269482016374 domain crossover interface; other site 269482016375 redox-dependent activation switch; other site 269482016376 Septum formation initiator; Region: DivIC; cl11433 269482016377 enolase; Provisional; Region: eno; PRK00077 269482016378 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 269482016379 dimer interface [polypeptide binding]; other site 269482016380 metal binding site [ion binding]; metal-binding site 269482016381 substrate binding pocket [chemical binding]; other site 269482016382 NeuB family; Region: NeuB; cl00496 269482016383 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482016384 CTP synthetase; Validated; Region: pyrG; PRK05380 269482016385 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 269482016386 Catalytic site [active] 269482016387 active site 269482016388 UTP binding site [chemical binding]; other site 269482016389 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 269482016390 active site 269482016391 putative oxyanion hole; other site 269482016392 catalytic triad [active] 269482016393 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482016394 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 269482016395 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 269482016396 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 269482016397 Competence protein; Region: Competence; cl00471 269482016398 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482016399 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 269482016400 active site 269482016401 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 269482016402 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269482016403 Walker A/P-loop; other site 269482016404 ATP binding site [chemical binding]; other site 269482016405 Q-loop/lid; other site 269482016406 ABC transporter signature motif; other site 269482016407 Walker B; other site 269482016408 D-loop; other site 269482016409 H-loop/switch region; other site 269482016410 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 269482016411 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482016412 FtsX-like permease family; Region: FtsX; cl15850 269482016413 Sulfatase; Region: Sulfatase; cl10460 269482016414 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 269482016415 DHH family; Region: DHH; pfam01368 269482016416 DHHA1 domain; Region: DHHA1; pfam02272 269482016417 RF-1 domain; Region: RF-1; cl02875 269482016418 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 269482016419 RF-1 domain; Region: RF-1; cl02875 269482016420 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 269482016421 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 269482016422 dimer interface [polypeptide binding]; other site 269482016423 putative anticodon binding site; other site 269482016424 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 269482016425 motif 1; other site 269482016426 active site 269482016427 motif 2; other site 269482016428 motif 3; other site 269482016429 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 269482016430 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482016431 catalytic loop [active] 269482016432 iron binding site [ion binding]; other site 269482016433 chaperone protein HscA; Provisional; Region: hscA; PRK05183 269482016434 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 269482016435 co-chaperone HscB; Provisional; Region: hscB; PRK03578 269482016436 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 269482016437 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 269482016438 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482016439 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 269482016440 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 269482016441 trimerization site [polypeptide binding]; other site 269482016442 active site 269482016443 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482016444 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 269482016445 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482016446 catalytic residue [active] 269482016447 Helix-turn-helix domains; Region: HTH; cl00088 269482016448 Rrf2 family protein; Region: rrf2_super; TIGR00738 269482016449 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482016450 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482016451 active site 269482016452 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482016453 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482016454 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482016455 Cysteine-rich domain; Region: CCG; pfam02754 269482016456 Cysteine-rich domain; Region: CCG; pfam02754 269482016457 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482016458 Helix-turn-helix domains; Region: HTH; cl00088 269482016459 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482016460 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 269482016461 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482016462 Phasin protein; Region: Phasin_2; cl11491 269482016463 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482016464 E3 interaction surface; other site 269482016465 lipoyl attachment site [posttranslational modification]; other site 269482016466 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 269482016467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482016468 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482016469 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482016470 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 269482016471 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482016472 E3 interaction surface; other site 269482016473 lipoyl attachment site [posttranslational modification]; other site 269482016474 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482016475 E3 interaction surface; other site 269482016476 lipoyl attachment site [posttranslational modification]; other site 269482016477 e3 binding domain; Region: E3_binding; pfam02817 269482016478 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 269482016479 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 269482016480 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 269482016481 dimer interface [polypeptide binding]; other site 269482016482 TPP-binding site [chemical binding]; other site 269482016483 PAS domain S-box; Region: sensory_box; TIGR00229 269482016484 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482016485 putative active site [active] 269482016486 heme pocket [chemical binding]; other site 269482016487 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 269482016488 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482016489 dimer interface [polypeptide binding]; other site 269482016490 phosphorylation site [posttranslational modification] 269482016491 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482016492 ATP binding site [chemical binding]; other site 269482016493 Mg2+ binding site [ion binding]; other site 269482016494 G-X-G motif; other site 269482016495 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482016496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482016497 active site 269482016498 phosphorylation site [posttranslational modification] 269482016499 intermolecular recognition site; other site 269482016500 dimerization interface [polypeptide binding]; other site 269482016501 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482016502 DNA binding residues [nucleotide binding] 269482016503 dimerization interface [polypeptide binding]; other site 269482016504 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 269482016505 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 269482016506 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 269482016507 homodimer interface [polypeptide binding]; other site 269482016508 NADP binding site [chemical binding]; other site 269482016509 substrate binding site [chemical binding]; other site 269482016510 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 269482016511 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 269482016512 active site 269482016513 Zn binding site [ion binding]; other site 269482016514 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 269482016515 active site 269482016516 DNA polymerase IV; Validated; Region: PRK02406 269482016517 DNA binding site [nucleotide binding] 269482016518 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 269482016519 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 269482016520 putative catalytic site [active] 269482016521 putative phosphate binding site [ion binding]; other site 269482016522 active site 269482016523 metal binding site A [ion binding]; metal-binding site 269482016524 DNA binding site [nucleotide binding] 269482016525 putative AP binding site [nucleotide binding]; other site 269482016526 putative metal binding site B [ion binding]; other site 269482016527 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 269482016528 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482016529 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 269482016530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482016531 active site 269482016532 phosphorylation site [posttranslational modification] 269482016533 intermolecular recognition site; other site 269482016534 dimerization interface [polypeptide binding]; other site 269482016535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016536 Walker A motif; other site 269482016537 ATP binding site [chemical binding]; other site 269482016538 Walker B motif; other site 269482016539 arginine finger; other site 269482016540 Helix-turn-helix domains; Region: HTH; cl00088 269482016541 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 269482016542 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482016543 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482016544 dimer interface [polypeptide binding]; other site 269482016545 phosphorylation site [posttranslational modification] 269482016546 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482016547 ATP binding site [chemical binding]; other site 269482016548 Mg2+ binding site [ion binding]; other site 269482016549 G-X-G motif; other site 269482016550 glutamine synthetase; Provisional; Region: glnA; PRK09469 269482016551 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 269482016552 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482016553 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 269482016554 active site residue [active] 269482016555 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 269482016556 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 269482016557 putative MPT binding site; other site 269482016558 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 269482016559 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 269482016560 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 269482016561 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269482016562 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 269482016563 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482016564 ATP binding site [chemical binding]; other site 269482016565 putative Mg++ binding site [ion binding]; other site 269482016566 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482016567 nucleotide binding region [chemical binding]; other site 269482016568 ATP-binding site [chemical binding]; other site 269482016569 Helicase associated domain (HA2); Region: HA2; cl04503 269482016570 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 269482016571 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 269482016572 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 269482016573 N-acetylglutamate synthase; Validated; Region: PRK05279 269482016574 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 269482016575 putative feedback inhibition sensing region; other site 269482016576 putative nucleotide binding site [chemical binding]; other site 269482016577 putative substrate binding site [chemical binding]; other site 269482016578 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482016579 Coenzyme A binding pocket [chemical binding]; other site 269482016580 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 269482016581 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482016582 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482016583 Peptidase C26; Region: Peptidase_C26; pfam07722 269482016584 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482016585 catalytic triad [active] 269482016586 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482016587 Helix-turn-helix domains; Region: HTH; cl00088 269482016588 Integrase core domain; Region: rve; cl01316 269482016589 N-formylglutamate amidohydrolase; Region: FGase; cl01522 269482016590 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 269482016591 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 269482016592 active site 269482016593 imidazolonepropionase; Validated; Region: PRK09356 269482016594 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 269482016595 active site 269482016596 HutD; Region: HutD; cl01532 269482016597 urocanate hydratase; Provisional; Region: PRK05414 269482016598 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482016599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482016600 DNA-binding site [nucleotide binding]; DNA binding site 269482016601 UTRA domain; Region: UTRA; cl01230 269482016602 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482016603 active sites [active] 269482016604 tetramer interface [polypeptide binding]; other site 269482016605 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 269482016606 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 269482016607 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 269482016608 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482016609 Helix-turn-helix domains; Region: HTH; cl00088 269482016610 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482016611 dimerization interface [polypeptide binding]; other site 269482016612 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482016613 putative substrate translocation pore; other site 269482016614 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482016615 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 269482016616 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482016617 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482016618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482016619 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482016620 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 269482016621 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 269482016622 putative metal binding site [ion binding]; other site 269482016623 Integral membrane protein TerC family; Region: TerC; cl10468 269482016624 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 269482016625 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482016626 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482016627 active site 269482016628 DNA binding site [nucleotide binding] 269482016629 Int/Topo IB signature motif; other site 269482016630 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 269482016631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482016632 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 269482016633 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482016634 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482016635 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 269482016636 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 269482016637 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 269482016638 PAAR motif; Region: PAAR_motif; cl15808 269482016639 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 269482016640 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 269482016641 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482016642 Na binding site [ion binding]; other site 269482016643 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 269482016644 acetyl-CoA synthetase; Provisional; Region: PRK00174 269482016645 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 269482016646 AMP-binding enzyme; Region: AMP-binding; cl15778 269482016647 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482016648 EamA-like transporter family; Region: EamA; cl01037 269482016649 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482016650 EamA-like transporter family; Region: EamA; cl01037 269482016651 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 269482016652 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 269482016653 Fumarase C-terminus; Region: Fumerase_C; cl00795 269482016654 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 269482016655 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 269482016656 heme binding site [chemical binding]; other site 269482016657 ferroxidase pore; other site 269482016658 ferroxidase diiron center [ion binding]; other site 269482016659 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 269482016660 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 269482016661 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482016662 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482016663 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269482016664 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482016665 Helix-turn-helix domains; Region: HTH; cl00088 269482016666 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 269482016667 putative effector binding pocket; other site 269482016668 putative dimerization interface [polypeptide binding]; other site 269482016669 Pirin-related protein [General function prediction only]; Region: COG1741 269482016670 Cupin domain; Region: Cupin_2; cl09118 269482016671 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482016672 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 269482016673 putative hydrophobic ligand binding site [chemical binding]; other site 269482016674 Hemin uptake protein hemP; Region: hemP; cl10043 269482016675 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 269482016676 4Fe-4S binding domain; Region: Fer4_5; pfam12801 269482016677 Iron permease FTR1 family; Region: FTR1; cl00475 269482016678 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482016679 Fe2+ transport protein; Region: Iron_transport; cl01377 269482016680 excinuclease ABC subunit B; Provisional; Region: PRK05298 269482016681 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482016682 ATP binding site [chemical binding]; other site 269482016683 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482016684 nucleotide binding region [chemical binding]; other site 269482016685 ATP-binding site [chemical binding]; other site 269482016686 Ultra-violet resistance protein B; Region: UvrB; pfam12344 269482016687 UvrB/uvrC motif; Region: UVR; pfam02151 269482016688 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 269482016689 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482016690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016691 homodimer interface [polypeptide binding]; other site 269482016692 catalytic residue [active] 269482016693 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 269482016694 classical (c) SDRs; Region: SDR_c; cd05233 269482016695 NAD(P) binding site [chemical binding]; other site 269482016696 active site 269482016697 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482016698 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482016699 active site 269482016700 catalytic tetrad [active] 269482016701 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 269482016702 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 269482016703 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482016704 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482016705 DNA binding residues [nucleotide binding] 269482016706 dimer interface [polypeptide binding]; other site 269482016707 copper binding site [ion binding]; other site 269482016708 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 269482016709 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482016710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482016711 active site 269482016712 phosphorylation site [posttranslational modification] 269482016713 intermolecular recognition site; other site 269482016714 dimerization interface [polypeptide binding]; other site 269482016715 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482016716 DNA binding residues [nucleotide binding] 269482016717 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 269482016718 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 269482016719 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 269482016720 putative active site [active] 269482016721 Zn binding site [ion binding]; other site 269482016722 Protein of unknown function (DUF328); Region: DUF328; cl01143 269482016723 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 269482016724 methionine aminotransferase; Validated; Region: PRK09082 269482016725 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482016726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016727 homodimer interface [polypeptide binding]; other site 269482016728 catalytic residue [active] 269482016729 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482016730 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 269482016731 C-terminal domain interface [polypeptide binding]; other site 269482016732 GSH binding site (G-site) [chemical binding]; other site 269482016733 dimer interface [polypeptide binding]; other site 269482016734 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 269482016735 putative N-terminal domain interface [polypeptide binding]; other site 269482016736 putative dimer interface [polypeptide binding]; other site 269482016737 putative substrate binding pocket (H-site) [chemical binding]; other site 269482016738 enoyl-CoA hydratase; Provisional; Region: PRK07511 269482016739 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482016740 substrate binding site [chemical binding]; other site 269482016741 oxyanion hole (OAH) forming residues; other site 269482016742 trimer interface [polypeptide binding]; other site 269482016743 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 269482016744 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 269482016745 C-terminal domain interface [polypeptide binding]; other site 269482016746 GSH binding site (G-site) [chemical binding]; other site 269482016747 dimer interface [polypeptide binding]; other site 269482016748 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 269482016749 N-terminal domain interface [polypeptide binding]; other site 269482016750 putative dimer interface [polypeptide binding]; other site 269482016751 active site 269482016752 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 269482016753 putative active site [active] 269482016754 putative catalytic site [active] 269482016755 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 269482016756 putative active site [active] 269482016757 putative catalytic site [active] 269482016758 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 269482016759 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482016760 active site 269482016761 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 269482016762 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 269482016763 FAD binding site [chemical binding]; other site 269482016764 substrate binding site [chemical binding]; other site 269482016765 catalytic base [active] 269482016766 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 269482016767 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 269482016768 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 269482016769 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 269482016770 dimer interface [polypeptide binding]; other site 269482016771 ADP-ribose binding site [chemical binding]; other site 269482016772 active site 269482016773 nudix motif; other site 269482016774 metal binding site [ion binding]; metal-binding site 269482016775 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 269482016776 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 269482016777 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269482016778 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 269482016779 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269482016780 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 269482016781 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 269482016782 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269482016783 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 269482016784 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 269482016785 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 269482016786 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 269482016787 4Fe-4S binding domain; Region: Fer4; cl02805 269482016788 4Fe-4S binding domain; Region: Fer4; cl02805 269482016789 NADH dehydrogenase; Region: NADHdh; cl00469 269482016790 NADH dehydrogenase subunit G; Validated; Region: PRK09129 269482016791 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482016792 catalytic loop [active] 269482016793 iron binding site [ion binding]; other site 269482016794 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 269482016795 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 269482016796 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 269482016797 SLBB domain; Region: SLBB; pfam10531 269482016798 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 269482016799 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 269482016800 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 269482016801 putative dimer interface [polypeptide binding]; other site 269482016802 [2Fe-2S] cluster binding site [ion binding]; other site 269482016803 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269482016804 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 269482016805 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 269482016806 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 269482016807 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 269482016808 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 269482016809 Preprotein translocase SecG subunit; Region: SecG; cl09123 269482016810 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 269482016811 substrate binding site [chemical binding]; other site 269482016812 dimer interface [polypeptide binding]; other site 269482016813 catalytic triad [active] 269482016814 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 269482016815 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 269482016816 NAD(P) binding site [chemical binding]; other site 269482016817 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 269482016818 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 269482016819 RNase E interface [polypeptide binding]; other site 269482016820 trimer interface [polypeptide binding]; other site 269482016821 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 269482016822 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 269482016823 RNase E interface [polypeptide binding]; other site 269482016824 trimer interface [polypeptide binding]; other site 269482016825 active site 269482016826 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 269482016827 putative nucleic acid binding region [nucleotide binding]; other site 269482016828 G-X-X-G motif; other site 269482016829 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 269482016830 RNA binding site [nucleotide binding]; other site 269482016831 domain interface; other site 269482016832 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 269482016833 16S/18S rRNA binding site [nucleotide binding]; other site 269482016834 S13e-L30e interaction site [polypeptide binding]; other site 269482016835 25S rRNA binding site [nucleotide binding]; other site 269482016836 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482016837 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 269482016838 putative ligand binding site [chemical binding]; other site 269482016839 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 269482016840 active site clefts [active] 269482016841 zinc binding site [ion binding]; other site 269482016842 dimer interface [polypeptide binding]; other site 269482016843 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482016844 Sulfate transporter family; Region: Sulfate_transp; cl15842 269482016845 2-isopropylmalate synthase; Validated; Region: PRK00915 269482016846 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 269482016847 active site 269482016848 catalytic residues [active] 269482016849 metal binding site [ion binding]; metal-binding site 269482016850 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 269482016851 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 269482016852 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269482016853 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 269482016854 ketol-acid reductoisomerase; Provisional; Region: PRK05479 269482016855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482016856 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 269482016857 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 269482016858 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 269482016859 putative valine binding site [chemical binding]; other site 269482016860 dimer interface [polypeptide binding]; other site 269482016861 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 269482016862 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 269482016863 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482016864 PYR/PP interface [polypeptide binding]; other site 269482016865 dimer interface [polypeptide binding]; other site 269482016866 TPP binding site [chemical binding]; other site 269482016867 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269482016868 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 269482016869 TPP-binding site [chemical binding]; other site 269482016870 dimer interface [polypeptide binding]; other site 269482016871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482016872 RNA polymerase factor sigma-70; Validated; Region: PRK09047 269482016873 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482016874 DNA binding residues [nucleotide binding] 269482016875 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 269482016876 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 269482016877 RDD family; Region: RDD; cl00746 269482016878 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482016879 MULE transposase domain; Region: MULE; pfam10551 269482016880 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 269482016881 putative active site [active] 269482016882 putative metal binding site [ion binding]; other site 269482016883 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482016884 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 269482016885 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 269482016886 Helix-turn-helix domains; Region: HTH; cl00088 269482016887 Bacterial transcriptional repressor; Region: TetR; pfam13972 269482016888 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482016889 short chain dehydrogenase; Provisional; Region: PRK06123 269482016890 classical (c) SDRs; Region: SDR_c; cd05233 269482016891 NAD(P) binding site [chemical binding]; other site 269482016892 active site 269482016893 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482016894 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 269482016895 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 269482016896 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 269482016897 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482016898 apolar tunnel; other site 269482016899 heme binding site [chemical binding]; other site 269482016900 dimerization interface [polypeptide binding]; other site 269482016901 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 269482016902 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 269482016903 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 269482016904 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 269482016905 Domain of unknown function (DUF333); Region: DUF333; pfam03891 269482016906 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 269482016907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482016908 active site 269482016909 phosphorylation site [posttranslational modification] 269482016910 intermolecular recognition site; other site 269482016911 dimerization interface [polypeptide binding]; other site 269482016912 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482016913 DNA binding site [nucleotide binding] 269482016914 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 269482016915 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 269482016916 Ligand Binding Site [chemical binding]; other site 269482016917 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 269482016918 GAF domain; Region: GAF; cl15785 269482016919 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482016920 dimer interface [polypeptide binding]; other site 269482016921 phosphorylation site [posttranslational modification] 269482016922 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482016923 ATP binding site [chemical binding]; other site 269482016924 Mg2+ binding site [ion binding]; other site 269482016925 G-X-G motif; other site 269482016926 K+-transporting ATPase, c chain; Region: KdpC; cl00944 269482016927 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 269482016928 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482016929 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 269482016930 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 269482016931 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 269482016932 NADP binding site [chemical binding]; other site 269482016933 dimer interface [polypeptide binding]; other site 269482016934 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 269482016935 active site 269482016936 dimer interfaces [polypeptide binding]; other site 269482016937 catalytic residues [active] 269482016938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482016939 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 269482016940 putative NAD(P) binding site [chemical binding]; other site 269482016941 putative active site [active] 269482016942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482016943 active site 269482016944 Transcriptional regulator; Region: Transcrip_reg; cl00361 269482016945 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 269482016946 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 269482016947 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482016948 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 269482016949 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 269482016950 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 269482016951 active site 269482016952 Oligomerisation domain; Region: Oligomerisation; cl00519 269482016953 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 269482016954 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 269482016955 Maf-like protein; Region: Maf; pfam02545 269482016956 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 269482016957 active site 269482016958 dimer interface [polypeptide binding]; other site 269482016959 ribonuclease G; Provisional; Region: PRK11712 269482016960 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 269482016961 homodimer interface [polypeptide binding]; other site 269482016962 oligonucleotide binding site [chemical binding]; other site 269482016963 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 269482016964 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269482016965 PAAR motif; Region: PAAR_motif; cl15808 269482016966 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 269482016967 putative active site [active] 269482016968 putative Zn binding site [ion binding]; other site 269482016969 Protein with unknown function (DUF469); Region: DUF469; cl01237 269482016970 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269482016971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482016972 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 269482016973 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 269482016974 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 269482016975 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482016976 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269482016977 Walker A/P-loop; other site 269482016978 ATP binding site [chemical binding]; other site 269482016979 Q-loop/lid; other site 269482016980 ABC transporter signature motif; other site 269482016981 Walker B; other site 269482016982 D-loop; other site 269482016983 H-loop/switch region; other site 269482016984 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 269482016985 putative metal binding site; other site 269482016986 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482016987 active site 269482016988 O-Antigen ligase; Region: Wzy_C; cl04850 269482016989 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 269482016990 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482016991 putative active site [active] 269482016992 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482016993 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482016994 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 269482016995 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 269482016996 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482016997 generic binding surface II; other site 269482016998 generic binding surface I; other site 269482016999 rhodanese superfamily protein; Provisional; Region: PRK05320 269482017000 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 269482017001 active site residue [active] 269482017002 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482017003 active site 269482017004 HIGH motif; other site 269482017005 nucleotide binding site [chemical binding]; other site 269482017006 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482017007 active site 269482017008 KMSKS motif; other site 269482017009 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 269482017010 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482017011 ATP binding site [chemical binding]; other site 269482017012 Mg++ binding site [ion binding]; other site 269482017013 motif III; other site 269482017014 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482017015 nucleotide binding region [chemical binding]; other site 269482017016 ATP-binding site [chemical binding]; other site 269482017017 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 269482017018 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 269482017019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017020 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482017021 META domain; Region: META; cl01245 269482017022 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 269482017023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017024 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 269482017025 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 269482017026 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 269482017027 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269482017028 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 269482017029 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 269482017030 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 269482017031 Helix-turn-helix domains; Region: HTH; cl00088 269482017032 ferredoxin; Provisional; Region: PRK06991 269482017033 Putative Fe-S cluster; Region: FeS; pfam04060 269482017034 4Fe-4S binding domain; Region: Fer4; cl02805 269482017035 ferredoxin; Provisional; Region: PRK06991 269482017036 endonuclease III; Provisional; Region: PRK10702 269482017037 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482017038 minor groove reading motif; other site 269482017039 helix-hairpin-helix signature motif; other site 269482017040 substrate binding pocket [chemical binding]; other site 269482017041 active site 269482017042 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 269482017043 EamA-like transporter family; Region: EamA; cl01037 269482017044 EamA-like transporter family; Region: EamA; cl01037 269482017045 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482017046 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482017047 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 269482017048 Cytochrome c; Region: Cytochrom_C; cl11414 269482017049 Cytochrome c; Region: Cytochrom_C; cl11414 269482017050 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482017051 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017052 Walker A motif; other site 269482017053 ATP binding site [chemical binding]; other site 269482017054 Walker B motif; other site 269482017055 arginine finger; other site 269482017056 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482017057 Benzoate membrane transport protein; Region: BenE; pfam03594 269482017058 benzoate transporter; Region: benE; TIGR00843 269482017059 transaldolase-like protein; Provisional; Region: PTZ00411 269482017060 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 269482017061 active site 269482017062 dimer interface [polypeptide binding]; other site 269482017063 catalytic residue [active] 269482017064 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482017065 dimer interface [polypeptide binding]; other site 269482017066 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482017067 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482017068 Na binding site [ion binding]; other site 269482017069 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 269482017070 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482017071 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 269482017072 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 269482017073 putative active site [active] 269482017074 UTRA domain; Region: UTRA; cl01230 269482017075 heat shock protein 90; Provisional; Region: PRK05218 269482017076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017077 ATP binding site [chemical binding]; other site 269482017078 Mg2+ binding site [ion binding]; other site 269482017079 G-X-G motif; other site 269482017080 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482017081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482017082 DNA-binding site [nucleotide binding]; DNA binding site 269482017083 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017085 homodimer interface [polypeptide binding]; other site 269482017086 catalytic residue [active] 269482017087 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482017088 EamA-like transporter family; Region: EamA; cl01037 269482017089 EamA-like transporter family; Region: EamA; cl01037 269482017090 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482017091 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017093 homodimer interface [polypeptide binding]; other site 269482017094 catalytic residue [active] 269482017095 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 269482017096 homotrimer interaction site [polypeptide binding]; other site 269482017097 putative active site [active] 269482017098 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 269482017099 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 269482017100 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482017101 metal binding site [ion binding]; metal-binding site 269482017102 active site 269482017103 I-site; other site 269482017104 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482017105 Chromate transporter; Region: Chromate_transp; pfam02417 269482017106 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482017107 Chromate transporter; Region: Chromate_transp; pfam02417 269482017108 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 269482017109 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 269482017110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482017111 Helix-turn-helix domains; Region: HTH; cl00088 269482017112 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482017113 dimerization interface [polypeptide binding]; other site 269482017114 Copper resistance protein D; Region: CopD; cl00563 269482017115 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 269482017116 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 269482017117 CAP-like domain; other site 269482017118 active site 269482017119 primary dimer interface [polypeptide binding]; other site 269482017120 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482017121 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 269482017122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017123 ATP binding site [chemical binding]; other site 269482017124 Mg2+ binding site [ion binding]; other site 269482017125 G-X-G motif; other site 269482017126 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482017127 anchoring element; other site 269482017128 dimer interface [polypeptide binding]; other site 269482017129 ATP binding site [chemical binding]; other site 269482017130 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482017131 active site 269482017132 metal binding site [ion binding]; metal-binding site 269482017133 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482017134 ABC transporter ATPase component; Reviewed; Region: PRK11147 269482017135 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 269482017136 Walker A/P-loop; other site 269482017137 ATP binding site [chemical binding]; other site 269482017138 Q-loop/lid; other site 269482017139 ABC transporter signature motif; other site 269482017140 Walker B; other site 269482017141 D-loop; other site 269482017142 H-loop/switch region; other site 269482017143 ABC transporter; Region: ABC_tran_2; pfam12848 269482017144 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269482017145 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 269482017146 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482017147 Rubredoxin; Region: Rubredoxin; pfam00301 269482017148 iron binding site [ion binding]; other site 269482017149 integrase; Provisional; Region: PRK09692 269482017150 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 269482017151 active site 269482017152 Int/Topo IB signature motif; other site 269482017153 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482017154 Helix-turn-helix domains; Region: HTH; cl00088 269482017155 Integrase core domain; Region: rve; cl01316 269482017156 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482017157 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 269482017158 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 269482017159 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482017160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269482017161 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482017162 active site 269482017163 metal binding site [ion binding]; metal-binding site 269482017164 interdomain interaction site; other site 269482017165 AAA domain; Region: AAA_25; pfam13481 269482017166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017167 Walker A motif; other site 269482017168 ATP binding site [chemical binding]; other site 269482017169 Walker B motif; other site 269482017170 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482017171 dimer interface [polypeptide binding]; other site 269482017172 ssDNA binding site [nucleotide binding]; other site 269482017173 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482017174 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 269482017175 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482017176 Helix-turn-helix domains; Region: HTH; cl00088 269482017177 Integrase core domain; Region: rve; cl01316 269482017178 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 269482017179 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 269482017180 secondary substrate binding site; other site 269482017181 primary substrate binding site; other site 269482017182 inhibition loop; other site 269482017183 dimerization interface [polypeptide binding]; other site 269482017184 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482017185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482017186 putative substrate translocation pore; other site 269482017187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017188 AAA domain; Region: AAA_28; pfam13521 269482017189 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482017190 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482017191 active site 269482017192 homotetramer interface [polypeptide binding]; other site 269482017193 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482017194 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482017195 Walker A/P-loop; other site 269482017196 ATP binding site [chemical binding]; other site 269482017197 Q-loop/lid; other site 269482017198 ABC transporter signature motif; other site 269482017199 Walker B; other site 269482017200 D-loop; other site 269482017201 H-loop/switch region; other site 269482017202 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 269482017203 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 269482017204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017205 dimer interface [polypeptide binding]; other site 269482017206 conserved gate region; other site 269482017207 putative PBP binding loops; other site 269482017208 ABC-ATPase subunit interface; other site 269482017209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017210 dimer interface [polypeptide binding]; other site 269482017211 conserved gate region; other site 269482017212 putative PBP binding loops; other site 269482017213 ABC-ATPase subunit interface; other site 269482017214 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 269482017215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482017216 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482017217 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482017218 dimer interface [polypeptide binding]; other site 269482017219 phosphorylation site [posttranslational modification] 269482017220 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017221 ATP binding site [chemical binding]; other site 269482017222 Mg2+ binding site [ion binding]; other site 269482017223 G-X-G motif; other site 269482017224 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482017225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482017226 active site 269482017227 phosphorylation site [posttranslational modification] 269482017228 intermolecular recognition site; other site 269482017229 dimerization interface [polypeptide binding]; other site 269482017230 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482017231 DNA binding site [nucleotide binding] 269482017232 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482017233 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482017234 substrate binding pocket [chemical binding]; other site 269482017235 membrane-bound complex binding site; other site 269482017236 hinge residues; other site 269482017237 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482017238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017239 dimer interface [polypeptide binding]; other site 269482017240 conserved gate region; other site 269482017241 putative PBP binding loops; other site 269482017242 ABC-ATPase subunit interface; other site 269482017243 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482017244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017245 dimer interface [polypeptide binding]; other site 269482017246 conserved gate region; other site 269482017247 putative PBP binding loops; other site 269482017248 ABC-ATPase subunit interface; other site 269482017249 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482017250 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269482017251 Walker A/P-loop; other site 269482017252 ATP binding site [chemical binding]; other site 269482017253 Q-loop/lid; other site 269482017254 ABC transporter signature motif; other site 269482017255 Walker B; other site 269482017256 D-loop; other site 269482017257 H-loop/switch region; other site 269482017258 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482017259 Helix-turn-helix domains; Region: HTH; cl00088 269482017260 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 269482017261 putative substrate binding pocket [chemical binding]; other site 269482017262 dimerization interface [polypeptide binding]; other site 269482017263 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482017264 trimer interface [polypeptide binding]; other site 269482017265 eyelet of channel; other site 269482017266 Nitrogen regulatory protein P-II; Region: P-II; cl00412 269482017267 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482017268 NAD synthetase; Provisional; Region: PRK13981 269482017269 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 269482017270 multimer interface [polypeptide binding]; other site 269482017271 active site 269482017272 catalytic triad [active] 269482017273 protein interface 1 [polypeptide binding]; other site 269482017274 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 269482017275 homodimer interface [polypeptide binding]; other site 269482017276 NAD binding pocket [chemical binding]; other site 269482017277 ATP binding pocket [chemical binding]; other site 269482017278 Mg binding site [ion binding]; other site 269482017279 active-site loop [active] 269482017280 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482017281 Protein of unknown function, DUF482; Region: DUF482; pfam04339 269482017282 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 269482017283 GIY-YIG motif/motif A; other site 269482017284 putative active site [active] 269482017285 putative metal binding site [ion binding]; other site 269482017286 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 269482017287 dimer interface [polypeptide binding]; other site 269482017288 substrate binding site [chemical binding]; other site 269482017289 metal binding sites [ion binding]; metal-binding site 269482017290 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482017291 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 269482017292 NAD(P) binding site [chemical binding]; other site 269482017293 catalytic residues [active] 269482017294 catalytic residues [active] 269482017295 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 269482017296 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482017297 putative NAD(P) binding site [chemical binding]; other site 269482017298 active site 269482017299 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482017300 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482017301 putative substrate translocation pore; other site 269482017302 hemY protein; Region: hemY_coli; TIGR00540 269482017303 HemY protein N-terminus; Region: HemY_N; pfam07219 269482017304 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 269482017305 TPR motif; other site 269482017306 binding surface 269482017307 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 269482017308 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 269482017309 active site 269482017310 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 269482017311 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 269482017312 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 269482017313 domain interfaces; other site 269482017314 active site 269482017315 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 269482017316 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 269482017317 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269482017318 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482017319 S-adenosylmethionine binding site [chemical binding]; other site 269482017320 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482017321 argininosuccinate lyase; Provisional; Region: PRK00855 269482017322 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 269482017323 active sites [active] 269482017324 tetramer interface [polypeptide binding]; other site 269482017325 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 269482017326 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482017327 motif II; other site 269482017328 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482017329 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482017330 arginine decarboxylase; Provisional; Region: PRK15029 269482017331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 269482017332 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482017333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482017334 catalytic residue [active] 269482017335 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 269482017336 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482017337 trimer interface [polypeptide binding]; other site 269482017338 active site 269482017339 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cl00891 269482017340 E-class dimer interface [polypeptide binding]; other site 269482017341 P-class dimer interface [polypeptide binding]; other site 269482017342 active site 269482017343 Cu2+ binding site [ion binding]; other site 269482017344 Zn2+ binding site [ion binding]; other site 269482017345 Domain of unknown function DUF59; Region: DUF59; cl00941 269482017346 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 269482017347 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 269482017348 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482017349 ligand binding site [chemical binding]; other site 269482017350 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 269482017351 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 269482017352 active site 269482017353 HIGH motif; other site 269482017354 KMSKS motif; other site 269482017355 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 269482017356 tRNA binding surface [nucleotide binding]; other site 269482017357 anticodon binding site; other site 269482017358 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 269482017359 dimer interface [polypeptide binding]; other site 269482017360 putative tRNA-binding site [nucleotide binding]; other site 269482017361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 269482017362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 269482017363 Family of unknown function (DUF490); Region: DUF490; pfam04357 269482017364 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 269482017365 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269482017366 Surface antigen; Region: Bac_surface_Ag; cl03097 269482017367 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 269482017368 ScpA/B protein; Region: ScpA_ScpB; cl00598 269482017369 pantoate--beta-alanine ligase; Region: panC; TIGR00018 269482017370 Pantoate-beta-alanine ligase; Region: PanC; cd00560 269482017371 active site 269482017372 ATP-binding site [chemical binding]; other site 269482017373 pantoate-binding site; other site 269482017374 HXXH motif; other site 269482017375 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 269482017376 tetramerization interface [polypeptide binding]; other site 269482017377 active site 269482017378 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482017379 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482017380 P-loop; other site 269482017381 Magnesium ion binding site [ion binding]; other site 269482017382 DoxX; Region: DoxX; cl00976 269482017383 cobyric acid synthase; Provisional; Region: PRK00784 269482017384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017385 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 269482017386 catalytic triad [active] 269482017387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017388 Walker A motif; other site 269482017389 ATP binding site [chemical binding]; other site 269482017390 Walker B motif; other site 269482017391 CobD/Cbib protein; Region: CobD_Cbib; cl00561 269482017392 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 269482017393 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482017394 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482017395 catalytic residue [active] 269482017396 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 269482017397 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 269482017398 cobalamin binding residues [chemical binding]; other site 269482017399 putative BtuC binding residues; other site 269482017400 dimer interface [polypeptide binding]; other site 269482017401 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482017402 catalytic core [active] 269482017403 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 269482017404 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 269482017405 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 269482017406 putative dimer interface [polypeptide binding]; other site 269482017407 active site pocket [active] 269482017408 putative cataytic base [active] 269482017409 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 269482017410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017411 Walker A/P-loop; other site 269482017412 ATP binding site [chemical binding]; other site 269482017413 Q-loop/lid; other site 269482017414 ABC transporter signature motif; other site 269482017415 Walker B; other site 269482017416 D-loop; other site 269482017417 H-loop/switch region; other site 269482017418 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 269482017419 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269482017420 ABC-ATPase subunit interface; other site 269482017421 dimer interface [polypeptide binding]; other site 269482017422 putative PBP binding regions; other site 269482017423 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 269482017424 Cell division protein ZapA; Region: ZapA; cl01146 269482017425 EVE domain; Region: EVE; cl00728 269482017426 Protein of unknown function (DUF541); Region: SIMPL; cl01077 269482017427 Cytochrome c; Region: Cytochrom_C; cl11414 269482017428 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 269482017429 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 269482017430 multifunctional aminopeptidase A; Provisional; Region: PRK00913 269482017431 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 269482017432 interface (dimer of trimers) [polypeptide binding]; other site 269482017433 Substrate-binding/catalytic site; other site 269482017434 Zn-binding sites [ion binding]; other site 269482017435 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 269482017436 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 269482017437 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 269482017438 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 269482017439 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 269482017440 putative active site [active] 269482017441 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269482017442 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269482017443 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 269482017444 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 269482017445 CysD dimerization site [polypeptide binding]; other site 269482017446 G1 box; other site 269482017447 putative GEF interaction site [polypeptide binding]; other site 269482017448 GTP/Mg2+ binding site [chemical binding]; other site 269482017449 Switch I region; other site 269482017450 G2 box; other site 269482017451 G3 box; other site 269482017452 Switch II region; other site 269482017453 G4 box; other site 269482017454 G5 box; other site 269482017455 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 269482017456 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 269482017457 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 269482017458 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482017459 Active Sites [active] 269482017460 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482017461 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482017462 Active Sites [active] 269482017463 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 269482017464 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 269482017465 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482017466 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482017467 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 269482017468 Helix-turn-helix domains; Region: HTH; cl00088 269482017469 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 269482017470 substrate binding site [chemical binding]; other site 269482017471 dimerization interface [polypeptide binding]; other site 269482017472 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482017473 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 269482017474 putative ligand binding site [chemical binding]; other site 269482017475 transcriptional activator TtdR; Provisional; Region: PRK09801 269482017476 Helix-turn-helix domains; Region: HTH; cl00088 269482017477 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482017478 putative effector binding pocket; other site 269482017479 dimerization interface [polypeptide binding]; other site 269482017480 short chain dehydrogenase; Provisional; Region: PRK12937 269482017481 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 269482017482 NADP binding site [chemical binding]; other site 269482017483 homodimer interface [polypeptide binding]; other site 269482017484 active site 269482017485 substrate binding site [chemical binding]; other site 269482017486 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482017487 NADP binding site [chemical binding]; other site 269482017488 active site 269482017489 steroid binding site; other site 269482017490 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 269482017491 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 269482017492 active site 269482017493 uracil binding [chemical binding]; other site 269482017494 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482017495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017496 NAD(P) binding site [chemical binding]; other site 269482017497 active site 269482017498 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 269482017499 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482017500 catalytic loop [active] 269482017501 iron binding site [ion binding]; other site 269482017502 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 269482017503 FAD binding pocket [chemical binding]; other site 269482017504 FAD binding motif [chemical binding]; other site 269482017505 phosphate binding motif [ion binding]; other site 269482017506 beta-alpha-beta structure motif; other site 269482017507 NAD binding pocket [chemical binding]; other site 269482017508 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 269482017509 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482017510 inhibitor-cofactor binding pocket; inhibition site 269482017511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017512 catalytic residue [active] 269482017513 putative acetyltransferase; Provisional; Region: PRK03624 269482017514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482017515 Coenzyme A binding pocket [chemical binding]; other site 269482017516 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 269482017517 Uncharacterized conserved protein [Function unknown]; Region: COG5634 269482017518 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482017519 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269482017520 Walker A/P-loop; other site 269482017521 ATP binding site [chemical binding]; other site 269482017522 Q-loop/lid; other site 269482017523 ABC transporter signature motif; other site 269482017524 Walker B; other site 269482017525 D-loop; other site 269482017526 H-loop/switch region; other site 269482017527 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482017528 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269482017529 Walker A/P-loop; other site 269482017530 ATP binding site [chemical binding]; other site 269482017531 Q-loop/lid; other site 269482017532 ABC transporter signature motif; other site 269482017533 Walker B; other site 269482017534 D-loop; other site 269482017535 H-loop/switch region; other site 269482017536 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482017537 TM-ABC transporter signature motif; other site 269482017538 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482017539 TM-ABC transporter signature motif; other site 269482017540 LytB protein; Region: LYTB; cl00507 269482017541 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 269482017542 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269482017543 hypothetical protein; Reviewed; Region: PRK00024 269482017544 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 269482017545 MPN+ (JAMM) motif; other site 269482017546 Zinc-binding site [ion binding]; other site 269482017547 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 269482017548 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 269482017549 L-aspartate oxidase; Provisional; Region: PRK09077 269482017550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017551 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 269482017552 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 269482017553 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 269482017554 dimerization interface [polypeptide binding]; other site 269482017555 active site 269482017556 Quinolinate synthetase A protein; Region: NadA; cl00420 269482017557 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482017558 Di-iron ligands [ion binding]; other site 269482017559 Transposase; Region: DDE_Tnp_ISL3; pfam01610 269482017560 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269482017561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482017562 16S rRNA methyltransferase B; Provisional; Region: PRK14901 269482017563 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482017564 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 269482017565 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 269482017566 active site 269482017567 substrate binding site [chemical binding]; other site 269482017568 cosubstrate binding site; other site 269482017569 catalytic site [active] 269482017570 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 269482017571 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 269482017572 active site 269482017573 Riboflavin kinase; Region: Flavokinase; cl03312 269482017574 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 269482017575 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482017576 active site 269482017577 HIGH motif; other site 269482017578 nucleotide binding site [chemical binding]; other site 269482017579 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 269482017580 active site 269482017581 KMSKS motif; other site 269482017582 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 269482017583 tRNA binding surface [nucleotide binding]; other site 269482017584 anticodon binding site; other site 269482017585 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269482017586 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 269482017587 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 269482017588 Flavoprotein; Region: Flavoprotein; cl08021 269482017589 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 269482017590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482017591 trimer interface [polypeptide binding]; other site 269482017592 active site 269482017593 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482017594 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482017595 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482017596 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482017597 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 269482017598 Clp amino terminal domain; Region: Clp_N; pfam02861 269482017599 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017600 Walker A motif; other site 269482017601 ATP binding site [chemical binding]; other site 269482017602 Walker B motif; other site 269482017603 arginine finger; other site 269482017604 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017605 Walker A motif; other site 269482017606 ATP binding site [chemical binding]; other site 269482017607 Walker B motif; other site 269482017608 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482017609 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 269482017610 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 269482017611 DNA-binding site [nucleotide binding]; DNA binding site 269482017612 RNA-binding motif; other site 269482017613 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 269482017614 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482017615 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482017616 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 269482017617 isocitrate dehydrogenase; Validated; Region: PRK07362 269482017618 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 269482017619 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 269482017620 pseudouridine synthase; Region: TIGR00093 269482017621 active site 269482017622 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 269482017623 elongation factor G; Reviewed; Region: PRK00007 269482017624 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 269482017625 G1 box; other site 269482017626 putative GEF interaction site [polypeptide binding]; other site 269482017627 GTP/Mg2+ binding site [chemical binding]; other site 269482017628 Switch I region; other site 269482017629 G2 box; other site 269482017630 G3 box; other site 269482017631 Switch II region; other site 269482017632 G4 box; other site 269482017633 G5 box; other site 269482017634 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 269482017635 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 269482017636 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 269482017637 High-affinity nickel-transport protein; Region: NicO; cl00964 269482017638 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482017639 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482017640 active site 269482017641 catalytic tetrad [active] 269482017642 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482017643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482017644 DNA-binding site [nucleotide binding]; DNA binding site 269482017645 UTRA domain; Region: UTRA; cl01230 269482017646 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482017647 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482017648 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482017649 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482017650 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 269482017651 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 269482017652 dimer interface [polypeptide binding]; other site 269482017653 active site 269482017654 oxalacetate/citrate binding site [chemical binding]; other site 269482017655 citrylCoA binding site [chemical binding]; other site 269482017656 coenzyme A binding site [chemical binding]; other site 269482017657 catalytic triad [active] 269482017658 putative transporter; Provisional; Region: PRK10504 269482017659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482017660 putative substrate translocation pore; other site 269482017661 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482017662 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482017663 Protein of unknown function (DUF962); Region: DUF962; cl01879 269482017664 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 269482017665 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482017666 ligand binding site [chemical binding]; other site 269482017667 flexible hinge region; other site 269482017668 Helix-turn-helix domains; Region: HTH; cl00088 269482017669 Chromate transporter; Region: Chromate_transp; pfam02417 269482017670 Chromate transporter; Region: Chromate_transp; pfam02417 269482017671 PAAR motif; Region: PAAR_motif; cl15808 269482017672 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482017673 Transposase domain (DUF772); Region: DUF772; pfam05598 269482017674 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482017675 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482017676 DDE superfamily endonuclease; Region: DDE_4; cl15789 269482017677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482017678 Integrase core domain; Region: rve; cl01316 269482017679 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482017680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482017681 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482017682 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482017683 Helix-turn-helix domains; Region: HTH; cl00088 269482017684 Integrase core domain; Region: rve; cl01316 269482017685 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482017686 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482017687 Integrase core domain; Region: rve; cl01316 269482017688 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482017689 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482017690 Helix-turn-helix domains; Region: HTH; cl00088 269482017691 Helix-turn-helix domains; Region: HTH; cl00088 269482017692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482017693 Transcription factor Pcc1; Region: Pcc1; cl12080 269482017694 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482017695 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482017696 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482017697 Integrase core domain; Region: rve; cl01316 269482017698 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482017699 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482017700 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017701 Walker A motif; other site 269482017702 ATP binding site [chemical binding]; other site 269482017703 Walker B motif; other site 269482017704 superoxide dismutase; Provisional; Region: PRK10543 269482017705 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 269482017706 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482017707 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 269482017708 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 269482017709 generic binding surface II; other site 269482017710 generic binding surface I; other site 269482017711 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 269482017712 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 269482017713 Trm112p-like protein; Region: Trm112p; cl01066 269482017714 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 269482017715 Ligand binding site; other site 269482017716 oligomer interface; other site 269482017717 adenylate kinase; Reviewed; Region: adk; PRK00279 269482017718 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 269482017719 AMP-binding site [chemical binding]; other site 269482017720 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 269482017721 Uncharacterized conserved protein [Function unknown]; Region: COG2912 269482017722 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 269482017723 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 269482017724 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 269482017725 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 269482017726 ornithine carbamoyltransferase; Provisional; Region: PRK00779 269482017727 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482017728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017729 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 269482017730 FAD binding domain; Region: FAD_binding_4; pfam01565 269482017731 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 269482017732 Protein of unknown function (DUF520); Region: DUF520; cl00723 269482017733 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 269482017734 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 269482017735 putative deacylase active site [active] 269482017736 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 269482017737 AMP-binding enzyme; Region: AMP-binding; cl15778 269482017738 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482017739 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 269482017740 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 269482017741 active site 269482017742 Int/Topo IB signature motif; other site 269482017743 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 269482017744 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482017745 DNA binding site [nucleotide binding] 269482017746 active site 269482017747 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 269482017748 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 269482017749 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 269482017750 AMIN domain; Region: AMIN; pfam11741 269482017751 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 269482017752 active site 269482017753 metal binding site [ion binding]; metal-binding site 269482017754 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 269482017755 EamA-like transporter family; Region: EamA; cl01037 269482017756 Pirin-related protein [General function prediction only]; Region: COG1741 269482017757 Cupin domain; Region: Cupin_2; cl09118 269482017758 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482017759 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 269482017760 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482017761 catalytic residues [active] 269482017762 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482017763 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482017764 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 269482017765 putative ATP binding site [chemical binding]; other site 269482017766 putative substrate interface [chemical binding]; other site 269482017767 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 269482017768 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482017769 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 269482017770 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482017771 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482017772 S-adenosylmethionine binding site [chemical binding]; other site 269482017773 Protein of unknown function DUF72; Region: DUF72; cl00777 269482017774 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 269482017775 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482017776 active site 269482017777 Int/Topo IB signature motif; other site 269482017778 DNA binding site [nucleotide binding] 269482017779 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482017780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482017781 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional; Region: PLN03229 269482017782 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 269482017783 TrwC relaxase; Region: TrwC; pfam08751 269482017784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482017785 Walker A motif; other site 269482017786 ATP binding site [chemical binding]; other site 269482017787 Walker B motif; other site 269482017788 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 269482017789 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482017790 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482017791 Pilin (bacterial filament); Region: Pilin; pfam00114 269482017792 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482017793 active site 269482017794 Int/Topo IB signature motif; other site 269482017795 DNA binding site [nucleotide binding] 269482017796 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482017797 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482017798 Pilin (bacterial filament); Region: Pilin; pfam00114 269482017799 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 269482017800 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 269482017801 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 269482017802 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 269482017803 Flavin Reductases; Region: FlaRed; cl00801 269482017804 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482017805 Helix-turn-helix domains; Region: HTH; cl00088 269482017806 AsnC family; Region: AsnC_trans_reg; pfam01037 269482017807 Putative cyclase; Region: Cyclase; cl00814 269482017808 kynureninase; Region: kynureninase; TIGR01814 269482017809 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482017810 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482017811 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482017812 catalytic residue [active] 269482017813 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 269482017814 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 269482017815 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 269482017816 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 269482017817 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 269482017818 N- and C-terminal domain interface [polypeptide binding]; other site 269482017819 D-xylulose kinase; Region: XylB; TIGR01312 269482017820 active site 269482017821 catalytic site [active] 269482017822 metal binding site [ion binding]; metal-binding site 269482017823 xylulose binding site [chemical binding]; other site 269482017824 putative ATP binding site [chemical binding]; other site 269482017825 homodimer interface [polypeptide binding]; other site 269482017826 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 269482017827 Helix-turn-helix domains; Region: HTH; cl00088 269482017828 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 269482017829 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 269482017830 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 269482017831 Walker A/P-loop; other site 269482017832 ATP binding site [chemical binding]; other site 269482017833 Q-loop/lid; other site 269482017834 ABC transporter signature motif; other site 269482017835 Walker B; other site 269482017836 D-loop; other site 269482017837 H-loop/switch region; other site 269482017838 TOBE domain; Region: TOBE_2; cl01440 269482017839 TOBE domain; Region: TOBE_2; cl01440 269482017840 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 269482017841 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482017842 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482017843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017844 dimer interface [polypeptide binding]; other site 269482017845 conserved gate region; other site 269482017846 putative PBP binding loops; other site 269482017847 ABC-ATPase subunit interface; other site 269482017848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482017849 dimer interface [polypeptide binding]; other site 269482017850 conserved gate region; other site 269482017851 putative PBP binding loops; other site 269482017852 ABC-ATPase subunit interface; other site 269482017853 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482017854 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482017855 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 269482017856 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482017857 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482017858 substrate binding site [chemical binding]; other site 269482017859 ATP binding site [chemical binding]; other site 269482017860 sorbitol dehydrogenase; Provisional; Region: PRK07067 269482017861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017862 NAD(P) binding site [chemical binding]; other site 269482017863 active site 269482017864 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269482017865 metal binding site 2 [ion binding]; metal-binding site 269482017866 putative DNA binding helix; other site 269482017867 metal binding site 1 [ion binding]; metal-binding site 269482017868 dimer interface [polypeptide binding]; other site 269482017869 structural Zn2+ binding site [ion binding]; other site 269482017870 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 269482017871 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 269482017872 metal binding site [ion binding]; metal-binding site 269482017873 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 269482017874 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 269482017875 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 269482017876 Predicted esterase [General function prediction only]; Region: COG0627 269482017877 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482017878 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 269482017879 N- and C-terminal domain interface [polypeptide binding]; other site 269482017880 active site 269482017881 MgATP binding site [chemical binding]; other site 269482017882 catalytic site [active] 269482017883 metal binding site [ion binding]; metal-binding site 269482017884 carbohydrate binding site [chemical binding]; other site 269482017885 xanthine permease; Region: pbuX; TIGR03173 269482017886 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 269482017887 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 269482017888 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482017889 Protein export membrane protein; Region: SecD_SecF; cl14618 269482017890 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482017891 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 269482017892 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482017893 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269482017894 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 269482017895 Helix-turn-helix domains; Region: HTH; cl00088 269482017896 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 269482017897 Isochorismatase family; Region: Isochorismatase; pfam00857 269482017898 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 269482017899 catalytic triad [active] 269482017900 conserved cis-peptide bond; other site 269482017901 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 269482017902 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482017903 conserved cys residue [active] 269482017904 tyrosine kinase; Provisional; Region: PRK11519 269482017905 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482017906 hydrophobic ligand binding site; other site 269482017907 Domain of unknown function (DUF427); Region: DUF427; cl00998 269482017908 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 269482017909 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482017910 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482017911 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482017912 protein binding site [polypeptide binding]; other site 269482017913 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482017914 protein binding site [polypeptide binding]; other site 269482017915 sensor protein QseC; Provisional; Region: PRK10337 269482017916 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482017917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017918 ATP binding site [chemical binding]; other site 269482017919 Mg2+ binding site [ion binding]; other site 269482017920 G-X-G motif; other site 269482017921 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 269482017922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482017923 active site 269482017924 phosphorylation site [posttranslational modification] 269482017925 intermolecular recognition site; other site 269482017926 dimerization interface [polypeptide binding]; other site 269482017927 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482017928 DNA binding site [nucleotide binding] 269482017929 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 269482017930 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482017931 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 269482017932 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 269482017933 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 269482017934 active site 269482017935 catalytic triad [active] 269482017936 oxyanion hole [active] 269482017937 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 269482017938 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 269482017939 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 269482017940 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482017941 AIR carboxylase; Region: AIRC; cl00310 269482017942 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 269482017943 ATP binding site [chemical binding]; other site 269482017944 active site 269482017945 substrate binding site [chemical binding]; other site 269482017946 hypothetical protein; Provisional; Region: PRK08185 269482017947 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 269482017948 intersubunit interface [polypeptide binding]; other site 269482017949 active site 269482017950 zinc binding site [ion binding]; other site 269482017951 Na+ binding site [ion binding]; other site 269482017952 pyruvate kinase; Provisional; Region: PRK05826 269482017953 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482017954 domain interfaces; other site 269482017955 active site 269482017956 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 269482017957 Phosphoglycerate kinase; Region: PGK; pfam00162 269482017958 substrate binding site [chemical binding]; other site 269482017959 hinge regions; other site 269482017960 ADP binding site [chemical binding]; other site 269482017961 catalytic site [active] 269482017962 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 269482017963 AzlC protein; Region: AzlC; cl00570 269482017964 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 269482017965 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 269482017966 homodimer interface [polypeptide binding]; other site 269482017967 substrate-cofactor binding pocket; other site 269482017968 catalytic residue [active] 269482017969 Zinc-finger domain; Region: zf-CHCC; cl01821 269482017970 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482017971 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482017972 putative active site [active] 269482017973 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482017974 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 269482017975 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 269482017976 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 269482017977 Peptidase family M48; Region: Peptidase_M48; cl12018 269482017978 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 269482017979 trimer interface [polypeptide binding]; other site 269482017980 dimer interface [polypeptide binding]; other site 269482017981 putative active site [active] 269482017982 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 269482017983 O-Antigen ligase; Region: Wzy_C; cl04850 269482017984 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 269482017985 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482017986 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482017987 Integral membrane protein TerC family; Region: TerC; cl10468 269482017988 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 269482017989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482017990 CoA-ligase; Region: Ligase_CoA; cl02894 269482017991 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 269482017992 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482017993 CoA-ligase; Region: Ligase_CoA; cl02894 269482017994 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 269482017995 RecX family; Region: RecX; cl00936 269482017996 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 269482017997 protein RecA; Region: tigrfam_recA; TIGR02012 269482017998 hexamer interface [polypeptide binding]; other site 269482017999 Walker A motif; other site 269482018000 ATP binding site [chemical binding]; other site 269482018001 Walker B motif; other site 269482018002 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482018003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482018004 active site 269482018005 phosphorylation site [posttranslational modification] 269482018006 intermolecular recognition site; other site 269482018007 dimerization interface [polypeptide binding]; other site 269482018008 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482018009 DNA binding site [nucleotide binding] 269482018010 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482018011 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482018012 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482018013 dimer interface [polypeptide binding]; other site 269482018014 phosphorylation site [posttranslational modification] 269482018015 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018016 ATP binding site [chemical binding]; other site 269482018017 Mg2+ binding site [ion binding]; other site 269482018018 G-X-G motif; other site 269482018019 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018020 putative substrate translocation pore; other site 269482018021 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482018022 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482018023 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 269482018024 Int/Topo IB signature motif; other site 269482018025 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 269482018026 transcriptional regulator; Provisional; Region: PRK10632 269482018027 Helix-turn-helix domains; Region: HTH; cl00088 269482018028 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482018029 putative effector binding pocket; other site 269482018030 putative dimerization interface [polypeptide binding]; other site 269482018031 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482018032 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482018033 conserved cys residue [active] 269482018034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482018035 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 269482018036 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 269482018037 conserved cys residue [active] 269482018038 Cupin domain; Region: Cupin_2; cl09118 269482018039 MAPEG family; Region: MAPEG; cl09190 269482018040 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 269482018041 Transglycosylase; Region: Transgly; cl07896 269482018042 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 269482018043 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 269482018044 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482018045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482018046 DNA-binding site [nucleotide binding]; DNA binding site 269482018047 FCD domain; Region: FCD; cl11656 269482018048 galactonate dehydratase; Provisional; Region: PRK14017 269482018049 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 269482018050 putative active site pocket [active] 269482018051 putative metal binding site [ion binding]; other site 269482018052 Copper resistance protein D; Region: CopD; cl00563 269482018053 Cytochrome c; Region: Cytochrom_C; cl11414 269482018054 Cytochrome c; Region: Cytochrom_C; cl11414 269482018055 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482018056 Cytochrome c; Region: Cytochrom_C; cl11414 269482018057 helicase 45; Provisional; Region: PTZ00424 269482018058 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482018059 ATP binding site [chemical binding]; other site 269482018060 Mg++ binding site [ion binding]; other site 269482018061 motif III; other site 269482018062 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482018063 nucleotide binding region [chemical binding]; other site 269482018064 ATP-binding site [chemical binding]; other site 269482018065 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482018066 dinuclear metal binding motif [ion binding]; other site 269482018067 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482018068 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482018069 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 269482018070 Helix-turn-helix domains; Region: HTH; cl00088 269482018071 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 269482018072 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 269482018073 glycerol kinase; Provisional; Region: glpK; PRK00047 269482018074 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 269482018075 N- and C-terminal domain interface [polypeptide binding]; other site 269482018076 active site 269482018077 MgATP binding site [chemical binding]; other site 269482018078 catalytic site [active] 269482018079 metal binding site [ion binding]; metal-binding site 269482018080 glycerol binding site [chemical binding]; other site 269482018081 homotetramer interface [polypeptide binding]; other site 269482018082 homodimer interface [polypeptide binding]; other site 269482018083 FBP binding site [chemical binding]; other site 269482018084 protein IIAGlc interface [polypeptide binding]; other site 269482018085 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 269482018086 amphipathic channel; other site 269482018087 Asn-Pro-Ala signature motifs; other site 269482018088 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 269482018089 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482018090 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 269482018091 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482018092 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482018093 non-specific DNA binding site [nucleotide binding]; other site 269482018094 salt bridge; other site 269482018095 sequence-specific DNA binding site [nucleotide binding]; other site 269482018096 Cupin domain; Region: Cupin_2; cl09118 269482018097 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 269482018098 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269482018099 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482018100 FeS/SAM binding site; other site 269482018101 TRAM domain; Region: TRAM; cl01282 269482018102 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 269482018103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482018104 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 269482018105 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269482018106 putative active site pocket [active] 269482018107 dimerization interface [polypeptide binding]; other site 269482018108 putative catalytic residue [active] 269482018109 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 269482018110 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482018111 Transporter associated domain; Region: CorC_HlyC; cl08393 269482018112 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 269482018113 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 269482018114 putative active site [active] 269482018115 catalytic triad [active] 269482018116 putative dimer interface [polypeptide binding]; other site 269482018117 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482018118 binding surface 269482018119 TPR repeat; Region: TPR_11; pfam13414 269482018120 TPR motif; other site 269482018121 TPR repeat; Region: TPR_11; pfam13414 269482018122 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 269482018123 dimer interface [polypeptide binding]; other site 269482018124 motif 1; other site 269482018125 active site 269482018126 motif 2; other site 269482018127 motif 3; other site 269482018128 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 269482018129 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 269482018130 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 269482018131 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482018132 active site 269482018133 motif I; other site 269482018134 motif II; other site 269482018135 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269482018136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482018137 putative acyl-acceptor binding pocket; other site 269482018138 Protein of unknown function DUF45; Region: DUF45; cl00636 269482018139 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482018140 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 269482018141 dimer interface [polypeptide binding]; other site 269482018142 active site 269482018143 metal binding site [ion binding]; metal-binding site 269482018144 glutathione binding site [chemical binding]; other site 269482018145 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 269482018146 EamA-like transporter family; Region: EamA; cl01037 269482018147 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482018148 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 269482018149 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 269482018150 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 269482018151 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482018152 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482018153 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269482018154 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 269482018155 Organic solvent tolerance protein; Region: OstA_C; pfam04453 269482018156 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482018157 Phosphotransferase enzyme family; Region: APH; pfam01636 269482018158 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 269482018159 Substrate binding site; other site 269482018160 metal-binding site 269482018161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269482018162 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 269482018163 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 269482018164 Walker A/P-loop; other site 269482018165 ATP binding site [chemical binding]; other site 269482018166 Q-loop/lid; other site 269482018167 ABC transporter signature motif; other site 269482018168 Walker B; other site 269482018169 D-loop; other site 269482018170 H-loop/switch region; other site 269482018171 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 269482018172 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 269482018173 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 269482018174 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 269482018175 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482018176 putative di-iron ligands [ion binding]; other site 269482018177 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 269482018178 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 269482018179 Subunit I/III interface [polypeptide binding]; other site 269482018180 Subunit III/IV interface [polypeptide binding]; other site 269482018181 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482018182 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482018183 D-pathway; other site 269482018184 Putative ubiquinol binding site [chemical binding]; other site 269482018185 Low-spin heme (heme b) binding site [chemical binding]; other site 269482018186 Putative water exit pathway; other site 269482018187 Binuclear center (heme o3/CuB) [ion binding]; other site 269482018188 K-pathway; other site 269482018189 Putative proton exit pathway; other site 269482018190 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 269482018191 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482018192 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 269482018193 enoyl-CoA hydratase; Provisional; Region: PRK06688 269482018194 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482018195 substrate binding site [chemical binding]; other site 269482018196 oxyanion hole (OAH) forming residues; other site 269482018197 trimer interface [polypeptide binding]; other site 269482018198 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482018199 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 269482018200 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482018201 dimer interface [polypeptide binding]; other site 269482018202 active site 269482018203 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 269482018204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018205 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482018206 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482018207 substrate binding site [chemical binding]; other site 269482018208 oxyanion hole (OAH) forming residues; other site 269482018209 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482018210 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482018211 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 269482018212 FAD binding site [chemical binding]; other site 269482018213 substrate binding site [chemical binding]; other site 269482018214 catalytic residues [active] 269482018215 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482018216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482018217 Helix-turn-helix domains; Region: HTH; cl00088 269482018218 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482018219 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 269482018220 putative active site [active] 269482018221 catalytic site [active] 269482018222 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 269482018223 putative active site [active] 269482018224 catalytic site [active] 269482018225 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 269482018226 nudix motif; other site 269482018227 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 269482018228 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 269482018229 dimer interface [polypeptide binding]; other site 269482018230 anticodon binding site; other site 269482018231 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 269482018232 homodimer interface [polypeptide binding]; other site 269482018233 motif 1; other site 269482018234 active site 269482018235 motif 2; other site 269482018236 GAD domain; Region: GAD; pfam02938 269482018237 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 269482018238 motif 3; other site 269482018239 Protein of unknown function (DUF502); Region: DUF502; cl01107 269482018240 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 269482018241 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 269482018242 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482018243 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482018244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 269482018245 SCP-2 sterol transfer family; Region: SCP2; cl01225 269482018246 Tim44-like domain; Region: Tim44; cl09208 269482018247 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 269482018248 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018249 S-adenosylmethionine binding site [chemical binding]; other site 269482018250 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482018251 Protein of unknown function (DUF971); Region: DUF971; cl01414 269482018252 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 269482018253 nucleotide binding site/active site [active] 269482018254 HIT family signature motif; other site 269482018255 catalytic residue [active] 269482018256 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 269482018257 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482018258 FAD binding domain; Region: FAD_binding_4; pfam01565 269482018259 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 269482018260 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 269482018261 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482018262 Cysteine-rich domain; Region: CCG; pfam02754 269482018263 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 269482018264 threonine dehydratase; Reviewed; Region: PRK09224 269482018265 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482018266 tetramer interface [polypeptide binding]; other site 269482018267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482018268 catalytic residue [active] 269482018269 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 269482018270 putative Ile/Val binding site [chemical binding]; other site 269482018271 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 269482018272 putative Ile/Val binding site [chemical binding]; other site 269482018273 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 269482018274 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482018275 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482018276 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 269482018277 homotrimer interaction site [polypeptide binding]; other site 269482018278 putative active site [active] 269482018279 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 269482018280 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 269482018281 active site 269482018282 putative substrate binding pocket [chemical binding]; other site 269482018283 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482018284 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482018285 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482018286 putative active site [active] 269482018287 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 269482018288 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 269482018289 dimer interface [polypeptide binding]; other site 269482018290 active site 269482018291 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482018292 substrate binding site [chemical binding]; other site 269482018293 catalytic residue [active] 269482018294 intracellular protease, PfpI family; Region: PfpI; TIGR01382 269482018295 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 269482018296 conserved cys residue [active] 269482018297 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482018298 Helix-turn-helix domains; Region: HTH; cl00088 269482018299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482018301 putative substrate translocation pore; other site 269482018302 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018303 EcsC protein family; Region: EcsC; pfam12787 269482018304 CHRD domain; Region: CHRD; cl06473 269482018305 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 269482018306 intersubunit interface [polypeptide binding]; other site 269482018307 active site 269482018308 Zn2+ binding site [ion binding]; other site 269482018309 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 269482018310 putative active site [active] 269482018311 catalytic site [active] 269482018312 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 269482018313 putative active site [active] 269482018314 catalytic site [active] 269482018315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482018316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482018317 DNA-binding site [nucleotide binding]; DNA binding site 269482018318 FCD domain; Region: FCD; cl11656 269482018319 Cysteine-rich domain; Region: CCG; pfam02754 269482018320 Cysteine-rich domain; Region: CCG; pfam02754 269482018321 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482018322 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482018323 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 269482018324 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482018325 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 269482018326 L-lactate permease; Region: Lactate_perm; cl00701 269482018327 glycolate transporter; Provisional; Region: PRK09695 269482018328 Peptidase family M48; Region: Peptidase_M48; cl12018 269482018329 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 269482018330 Ligand binding site; other site 269482018331 Putative Catalytic site; other site 269482018332 DXD motif; other site 269482018333 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482018334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018335 NAD(P) binding site [chemical binding]; other site 269482018336 active site 269482018337 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482018338 Predicted membrane protein [Function unknown]; Region: COG4648 269482018339 AMP-binding enzyme; Region: AMP-binding; cl15778 269482018340 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 269482018341 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 269482018342 active site 2 [active] 269482018343 dimer interface [polypeptide binding]; other site 269482018344 active site 1 [active] 269482018345 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482018346 putative acyl-acceptor binding pocket; other site 269482018347 Predicted exporter [General function prediction only]; Region: COG4258 269482018348 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 269482018349 NodB motif; other site 269482018350 active site 269482018351 catalytic site [active] 269482018352 metal binding site [ion binding]; metal-binding site 269482018353 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 269482018354 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482018355 dimer interface [polypeptide binding]; other site 269482018356 active site 269482018357 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 269482018358 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482018359 active site 2 [active] 269482018360 active site 1 [active] 269482018361 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 269482018362 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482018363 NAD(P) binding site [chemical binding]; other site 269482018364 homotetramer interface [polypeptide binding]; other site 269482018365 homodimer interface [polypeptide binding]; other site 269482018366 active site 269482018367 putative acyltransferase; Provisional; Region: PRK05790 269482018368 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482018369 dimer interface [polypeptide binding]; other site 269482018370 active site 269482018371 Phasin protein; Region: Phasin_2; cl11491 269482018372 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482018373 Helix-turn-helix domains; Region: HTH; cl00088 269482018374 Integrase core domain; Region: rve; cl01316 269482018375 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482018376 Helix-turn-helix domains; Region: HTH; cl00088 269482018377 Integrase core domain; Region: rve; cl01316 269482018378 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482018379 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482018380 P-loop; other site 269482018381 Magnesium ion binding site [ion binding]; other site 269482018382 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482018383 Magnesium ion binding site [ion binding]; other site 269482018384 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482018385 dimer interface [polypeptide binding]; other site 269482018386 ssDNA binding site [nucleotide binding]; other site 269482018387 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482018388 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018389 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482018390 putative substrate translocation pore; other site 269482018391 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 269482018392 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269482018393 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269482018394 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 269482018395 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482018396 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 269482018397 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 269482018398 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 269482018399 putative active site [active] 269482018400 putative substrate binding site [chemical binding]; other site 269482018401 putative cosubstrate binding site; other site 269482018402 catalytic site [active] 269482018403 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 269482018404 nudix motif; other site 269482018405 LysE type translocator; Region: LysE; cl00565 269482018406 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482018407 active site 269482018408 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269482018409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018410 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269482018411 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 269482018412 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 269482018413 putative active site [active] 269482018414 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 269482018415 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 269482018416 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482018417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 269482018418 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 269482018419 OstA-like protein; Region: OstA; cl00844 269482018420 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 269482018421 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 269482018422 Walker A/P-loop; other site 269482018423 ATP binding site [chemical binding]; other site 269482018424 Q-loop/lid; other site 269482018425 ABC transporter signature motif; other site 269482018426 Walker B; other site 269482018427 D-loop; other site 269482018428 H-loop/switch region; other site 269482018429 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 269482018430 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 269482018431 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 269482018432 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 269482018433 30S subunit binding site; other site 269482018434 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 269482018435 active site 269482018436 phosphorylation site [posttranslational modification] 269482018437 HPr kinase/phosphorylase; Provisional; Region: PRK05428 269482018438 DRTGG domain; Region: DRTGG; cl12147 269482018439 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 269482018440 Hpr binding site; other site 269482018441 active site 269482018442 homohexamer subunit interaction site [polypeptide binding]; other site 269482018443 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 269482018444 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 269482018445 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 269482018446 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 269482018447 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482018448 minor groove reading motif; other site 269482018449 helix-hairpin-helix signature motif; other site 269482018450 substrate binding pocket [chemical binding]; other site 269482018451 active site 269482018452 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 269482018453 DNA binding and oxoG recognition site [nucleotide binding] 269482018454 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 269482018455 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 269482018456 DNA binding site [nucleotide binding] 269482018457 catalytic residue [active] 269482018458 H2TH interface [polypeptide binding]; other site 269482018459 putative catalytic residues [active] 269482018460 turnover-facilitating residue; other site 269482018461 intercalation triad [nucleotide binding]; other site 269482018462 8OG recognition residue [nucleotide binding]; other site 269482018463 putative reading head residues; other site 269482018464 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 269482018465 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269482018466 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 269482018467 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482018468 binding surface 269482018469 TPR motif; other site 269482018470 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482018471 TPR motif; other site 269482018472 binding surface 269482018473 TPR repeat; Region: TPR_11; pfam13414 269482018474 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482018475 binding surface 269482018476 TPR motif; other site 269482018477 TPR repeat; Region: TPR_11; pfam13414 269482018478 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 269482018479 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 269482018480 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 269482018481 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 269482018482 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 269482018483 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 269482018484 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482018485 active site 269482018486 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 269482018487 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 269482018488 5S rRNA interface [nucleotide binding]; other site 269482018489 CTC domain interface [polypeptide binding]; other site 269482018490 L16 interface [polypeptide binding]; other site 269482018491 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 269482018492 putative active site [active] 269482018493 catalytic residue [active] 269482018494 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 269482018495 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482018496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482018497 homodimer interface [polypeptide binding]; other site 269482018498 catalytic residue [active] 269482018499 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 269482018500 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 269482018501 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 269482018502 active site 269482018503 (T/H)XGH motif; other site 269482018504 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 269482018505 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018506 S-adenosylmethionine binding site [chemical binding]; other site 269482018507 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 269482018508 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 269482018509 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 269482018510 P loop; other site 269482018511 GTP binding site [chemical binding]; other site 269482018512 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 269482018513 maleylacetoacetate isomerase; Region: maiA; TIGR01262 269482018514 C-terminal domain interface [polypeptide binding]; other site 269482018515 GSH binding site (G-site) [chemical binding]; other site 269482018516 putative dimer interface [polypeptide binding]; other site 269482018517 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 269482018518 dimer interface [polypeptide binding]; other site 269482018519 N-terminal domain interface [polypeptide binding]; other site 269482018520 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 269482018521 glycosyl transferase family protein; Provisional; Region: PRK08136 269482018522 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269482018523 2-isopropylmalate synthase; Validated; Region: PRK03739 269482018524 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 269482018525 active site 269482018526 catalytic residues [active] 269482018527 metal binding site [ion binding]; metal-binding site 269482018528 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482018529 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 269482018530 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 269482018531 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482018532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482018533 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482018534 DNA binding residues [nucleotide binding] 269482018535 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 269482018536 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482018537 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482018538 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482018539 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 269482018540 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 269482018541 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 269482018542 active site 269482018543 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 269482018544 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 269482018545 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 269482018546 active site turn [active] 269482018547 phosphorylation site [posttranslational modification] 269482018548 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 269482018549 HPr interaction site; other site 269482018550 glycerol kinase (GK) interaction site [polypeptide binding]; other site 269482018551 active site 269482018552 phosphorylation site [posttranslational modification] 269482018553 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 269482018554 dimerization domain swap beta strand [polypeptide binding]; other site 269482018555 regulatory protein interface [polypeptide binding]; other site 269482018556 active site 269482018557 regulatory phosphorylation site [posttranslational modification]; other site 269482018558 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 269482018559 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 269482018560 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 269482018561 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482018562 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 269482018563 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482018564 dimer interface [polypeptide binding]; other site 269482018565 active site 269482018566 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482018567 dimer interface [polypeptide binding]; other site 269482018568 active site 269482018569 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 269482018570 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 269482018571 active site 269482018572 dimer interface [polypeptide binding]; other site 269482018573 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482018574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482018575 DNA-binding site [nucleotide binding]; DNA binding site 269482018576 UTRA domain; Region: UTRA; cl01230 269482018577 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482018578 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 269482018579 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482018580 generic binding surface II; other site 269482018581 generic binding surface I; other site 269482018582 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482018583 active site 269482018584 DNA binding site [nucleotide binding] 269482018585 NMT1-like family; Region: NMT1_2; cl15260 269482018586 Cache domain; Region: Cache_2; cl07034 269482018587 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482018588 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482018589 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482018590 dimer interface [polypeptide binding]; other site 269482018591 putative CheW interface [polypeptide binding]; other site 269482018592 YCII-related domain; Region: YCII; cl00999 269482018593 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 269482018594 Cu(I) binding site [ion binding]; other site 269482018595 UbiA prenyltransferase family; Region: UbiA; cl00337 269482018596 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 269482018597 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 269482018598 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 269482018599 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482018600 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 269482018601 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 269482018602 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 269482018603 Subunit III/VIIa interface [polypeptide binding]; other site 269482018604 Phospholipid binding site [chemical binding]; other site 269482018605 Subunit I/III interface [polypeptide binding]; other site 269482018606 Subunit III/VIb interface [polypeptide binding]; other site 269482018607 Subunit III/VIa interface; other site 269482018608 Subunit III/Vb interface [polypeptide binding]; other site 269482018609 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 269482018610 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 269482018611 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482018612 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 269482018613 Subunit I/III interface [polypeptide binding]; other site 269482018614 D-pathway; other site 269482018615 Subunit I/VIIc interface [polypeptide binding]; other site 269482018616 Subunit I/IV interface [polypeptide binding]; other site 269482018617 Subunit I/II interface [polypeptide binding]; other site 269482018618 Low-spin heme (heme a) binding site [chemical binding]; other site 269482018619 Subunit I/VIIa interface [polypeptide binding]; other site 269482018620 Subunit I/VIa interface [polypeptide binding]; other site 269482018621 Dimer interface; other site 269482018622 Putative water exit pathway; other site 269482018623 Binuclear center (heme a3/CuB) [ion binding]; other site 269482018624 K-pathway; other site 269482018625 Subunit I/Vb interface [polypeptide binding]; other site 269482018626 Putative proton exit pathway; other site 269482018627 Subunit I/VIb interface; other site 269482018628 Subunit I/VIc interface [polypeptide binding]; other site 269482018629 Electron transfer pathway; other site 269482018630 Subunit I/VIIIb interface [polypeptide binding]; other site 269482018631 Subunit I/VIIb interface [polypeptide binding]; other site 269482018632 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 269482018633 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 269482018634 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482018635 Cytochrome c; Region: Cytochrom_C; cl11414 269482018636 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482018637 ligand binding site [chemical binding]; other site 269482018638 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 269482018639 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018640 S-adenosylmethionine binding site [chemical binding]; other site 269482018641 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 269482018642 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269482018643 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 269482018644 putative ADP-ribose binding site [chemical binding]; other site 269482018645 putative active site [active] 269482018646 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 269482018647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018648 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 269482018649 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 269482018650 SecA binding site; other site 269482018651 Preprotein binding site; other site 269482018652 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 269482018653 GSH binding site [chemical binding]; other site 269482018654 catalytic residues [active] 269482018655 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 269482018656 active site residue [active] 269482018657 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482018658 catalytic core [active] 269482018659 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482018660 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 269482018661 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269482018662 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 269482018663 protein binding site [polypeptide binding]; other site 269482018664 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 269482018665 Catalytic dyad [active] 269482018666 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 269482018667 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 269482018668 ATP binding site [chemical binding]; other site 269482018669 substrate interface [chemical binding]; other site 269482018670 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 269482018671 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 269482018672 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 269482018673 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482018674 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 269482018675 dimerization domain swap beta strand [polypeptide binding]; other site 269482018676 regulatory protein interface [polypeptide binding]; other site 269482018677 active site 269482018678 regulatory phosphorylation site [posttranslational modification]; other site 269482018679 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 269482018680 active pocket/dimerization site; other site 269482018681 active site 269482018682 phosphorylation site [posttranslational modification] 269482018683 glutathione synthetase; Provisional; Region: PRK05246 269482018684 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 269482018685 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269482018686 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 269482018687 Glutamate-cysteine ligase; Region: GshA; pfam08886 269482018688 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 269482018689 Nitrogen regulatory protein P-II; Region: P-II; cl00412 269482018690 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482018691 Membrane fusogenic activity; Region: BMFP; cl01115 269482018692 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 269482018693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482018694 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 269482018695 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482018696 catalytic residues [active] 269482018697 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482018698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482018699 active site 269482018700 phosphorylation site [posttranslational modification] 269482018701 intermolecular recognition site; other site 269482018702 dimerization interface [polypeptide binding]; other site 269482018703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482018704 Walker A motif; other site 269482018705 ATP binding site [chemical binding]; other site 269482018706 Walker B motif; other site 269482018707 arginine finger; other site 269482018708 Helix-turn-helix domains; Region: HTH; cl00088 269482018709 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482018710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482018711 dimer interface [polypeptide binding]; other site 269482018712 phosphorylation site [posttranslational modification] 269482018713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018714 ATP binding site [chemical binding]; other site 269482018715 G-X-G motif; other site 269482018716 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 269482018717 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482018718 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 269482018719 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482018720 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482018721 active site 269482018722 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 269482018723 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 269482018724 FAD binding site [chemical binding]; other site 269482018725 substrate binding site [chemical binding]; other site 269482018726 catalytic base [active] 269482018727 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482018728 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 269482018729 substrate binding site [chemical binding]; other site 269482018730 oxyanion hole (OAH) forming residues; other site 269482018731 trimer interface [polypeptide binding]; other site 269482018732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018733 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482018734 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482018735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482018736 Helix-turn-helix domains; Region: HTH; cl00088 269482018737 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482018738 putative effector binding pocket; other site 269482018739 dimerization interface [polypeptide binding]; other site 269482018740 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482018741 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482018742 hypothetical protein; Provisional; Region: PRK10396 269482018743 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 269482018744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018745 dimer interface [polypeptide binding]; other site 269482018746 conserved gate region; other site 269482018747 putative PBP binding loops; other site 269482018748 ABC-ATPase subunit interface; other site 269482018749 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 269482018750 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269482018751 Walker A/P-loop; other site 269482018752 ATP binding site [chemical binding]; other site 269482018753 Q-loop/lid; other site 269482018754 ABC transporter signature motif; other site 269482018755 Walker B; other site 269482018756 D-loop; other site 269482018757 H-loop/switch region; other site 269482018758 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 269482018759 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482018760 substrate binding pocket [chemical binding]; other site 269482018761 membrane-bound complex binding site; other site 269482018762 hinge residues; other site 269482018763 lipoyl synthase; Provisional; Region: PRK05481 269482018764 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482018765 FeS/SAM binding site; other site 269482018766 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 269482018767 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 269482018768 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482018769 Helix-turn-helix domains; Region: HTH; cl00088 269482018770 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482018771 dimerization interface [polypeptide binding]; other site 269482018772 substrate binding pocket [chemical binding]; other site 269482018773 Protein of unknown function (DUF493); Region: DUF493; cl01102 269482018774 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 269482018775 homodimer interface [polypeptide binding]; other site 269482018776 substrate-cofactor binding pocket; other site 269482018777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482018778 catalytic residue [active] 269482018779 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 269482018780 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482018781 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 269482018782 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 269482018783 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269482018784 dimer interface [polypeptide binding]; other site 269482018785 [2Fe-2S] cluster binding site [ion binding]; other site 269482018786 Protein of unknown function (DUF330); Region: DUF330; cl01135 269482018787 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 269482018788 mce related protein; Region: MCE; pfam02470 269482018789 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 269482018790 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 269482018791 Walker A/P-loop; other site 269482018792 ATP binding site [chemical binding]; other site 269482018793 Q-loop/lid; other site 269482018794 ABC transporter signature motif; other site 269482018795 Walker B; other site 269482018796 D-loop; other site 269482018797 H-loop/switch region; other site 269482018798 Permease; Region: Permease; cl00510 269482018799 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 269482018800 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 269482018801 active site 269482018802 metal binding site [ion binding]; metal-binding site 269482018803 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 269482018804 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482018805 biotin--protein ligase; Provisional; Region: PRK06955 269482018806 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 269482018807 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 269482018808 Type III pantothenate kinase; Region: Pan_kinase; cl09130 269482018809 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482018810 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 269482018811 active site 269482018812 HIGH motif; other site 269482018813 nucleotide binding site [chemical binding]; other site 269482018814 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482018815 dinuclear metal binding motif [ion binding]; other site 269482018816 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482018817 active site 269482018818 nucleophile elbow; other site 269482018819 enoyl-CoA hydratase; Provisional; Region: PRK06563 269482018820 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482018821 substrate binding site [chemical binding]; other site 269482018822 oxyanion hole (OAH) forming residues; other site 269482018823 trimer interface [polypeptide binding]; other site 269482018824 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482018825 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482018826 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482018827 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482018828 Helix-turn-helix domains; Region: HTH; cl00088 269482018829 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 269482018830 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 269482018831 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 269482018832 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 269482018833 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 269482018834 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 269482018835 substrate binding pocket [chemical binding]; other site 269482018836 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 269482018837 B12 binding site [chemical binding]; other site 269482018838 cobalt ligand [ion binding]; other site 269482018839 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 269482018840 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 269482018841 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 269482018842 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 269482018843 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 269482018844 active site 269482018845 HIGH motif; other site 269482018846 KMSK motif region; other site 269482018847 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 269482018848 tRNA binding surface [nucleotide binding]; other site 269482018849 anticodon binding site; other site 269482018850 Sporulation related domain; Region: SPOR; cl10051 269482018851 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 269482018852 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482018853 catalytic residues [active] 269482018854 hinge region; other site 269482018855 alpha helical domain; other site 269482018856 short chain dehydrogenase; Provisional; Region: PRK08251 269482018857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018858 NAD(P) binding site [chemical binding]; other site 269482018859 active site 269482018860 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 269482018861 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482018862 peptide binding site [polypeptide binding]; other site 269482018863 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482018864 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 269482018865 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 269482018866 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 269482018867 active site clefts [active] 269482018868 zinc binding site [ion binding]; other site 269482018869 dimer interface [polypeptide binding]; other site 269482018870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018871 NAD(P) binding site [chemical binding]; other site 269482018872 active site 269482018873 hypothetical protein; Provisional; Region: PRK01842 269482018874 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 269482018875 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482018876 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 269482018877 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482018878 inhibitor-cofactor binding pocket; inhibition site 269482018879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482018880 catalytic residue [active] 269482018881 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 269482018882 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482018883 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482018884 catalytic residue [active] 269482018885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482018886 AAA domain; Region: AAA_26; pfam13500 269482018887 biotin synthase; Region: bioB; TIGR00433 269482018888 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482018889 FeS/SAM binding site; other site 269482018890 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 269482018891 CutC family; Region: CutC; cl01218 269482018892 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482018893 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 269482018894 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 269482018895 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 269482018896 dimer interface [polypeptide binding]; other site 269482018897 PYR/PP interface [polypeptide binding]; other site 269482018898 TPP binding site [chemical binding]; other site 269482018899 substrate binding site [chemical binding]; other site 269482018900 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 269482018901 TPP-binding site; other site 269482018902 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 269482018903 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 269482018904 trimer interface [polypeptide binding]; other site 269482018905 active site 269482018906 substrate binding site [chemical binding]; other site 269482018907 CoA binding site [chemical binding]; other site 269482018908 Ion channel; Region: Ion_trans_2; cl11596 269482018909 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482018910 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482018911 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482018912 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 269482018913 dimer interface [polypeptide binding]; other site 269482018914 active site 269482018915 catalytic residue [active] 269482018916 Helix-turn-helix domains; Region: HTH; cl00088 269482018917 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482018918 dimerization interface [polypeptide binding]; other site 269482018919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018920 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482018921 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 269482018922 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482018923 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482018924 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 269482018925 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 269482018926 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 269482018927 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 269482018928 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482018929 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482018930 Phosphoesterase family; Region: Phosphoesterase; cl15450 269482018931 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482018932 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482018933 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482018934 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 269482018935 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 269482018936 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482018937 putative metal binding site [ion binding]; other site 269482018938 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 269482018939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018940 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 269482018941 active site 269482018942 catalytic residues [active] 269482018943 metal binding site [ion binding]; metal-binding site 269482018944 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 269482018945 putative deacylase active site [active] 269482018946 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 269482018947 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482018948 EamA-like transporter family; Region: EamA; cl01037 269482018949 EamA-like transporter family; Region: EamA; cl01037 269482018950 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 269482018951 Helix-turn-helix domains; Region: HTH; cl00088 269482018952 AsnC family; Region: AsnC_trans_reg; pfam01037 269482018953 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482018954 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 269482018955 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482018956 FMN binding site [chemical binding]; other site 269482018957 substrate binding site [chemical binding]; other site 269482018958 putative catalytic residue [active] 269482018959 transcriptional regulator; Provisional; Region: PRK10632 269482018960 Helix-turn-helix domains; Region: HTH; cl00088 269482018961 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482018962 putative effector binding pocket; other site 269482018963 dimerization interface [polypeptide binding]; other site 269482018964 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482018965 trimer interface [polypeptide binding]; other site 269482018966 eyelet of channel; other site 269482018967 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 269482018968 Membrane transport protein; Region: Mem_trans; cl09117 269482018969 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482018970 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 269482018971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482018972 metal binding site [ion binding]; metal-binding site 269482018973 active site 269482018974 I-site; other site 269482018975 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482018976 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482018977 DNA binding site [nucleotide binding] 269482018978 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482018979 ligand binding site [chemical binding]; other site 269482018980 dimerization interface [polypeptide binding]; other site 269482018981 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 269482018982 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 269482018983 dimerization interface [polypeptide binding]; other site 269482018984 putative active cleft [active] 269482018985 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 269482018986 putative substrate binding site [chemical binding]; other site 269482018987 putative ATP binding site [chemical binding]; other site 269482018988 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 269482018989 Uncharacterized conserved protein [Function unknown]; Region: COG1565 269482018990 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 269482018991 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482018992 active site 269482018993 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 269482018994 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 269482018995 Ligand Binding Site [chemical binding]; other site 269482018996 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 269482018997 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 269482018998 Substrate binding site; other site 269482018999 Mg++ binding site; other site 269482019000 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 269482019001 active site 269482019002 substrate binding site [chemical binding]; other site 269482019003 CoA binding site [chemical binding]; other site 269482019004 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482019005 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482019006 glutaminase active site [active] 269482019007 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482019008 dimer interface [polypeptide binding]; other site 269482019009 active site 269482019010 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482019011 dimer interface [polypeptide binding]; other site 269482019012 active site 269482019013 Iron permease FTR1 family; Region: FTR1; cl00475 269482019014 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269482019015 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482019016 metal-binding site [ion binding] 269482019017 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 269482019018 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 269482019019 NAD(P) binding site [chemical binding]; other site 269482019020 catalytic residues [active] 269482019021 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482019022 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482019023 non-specific DNA binding site [nucleotide binding]; other site 269482019024 salt bridge; other site 269482019025 sequence-specific DNA binding site [nucleotide binding]; other site 269482019026 Cupin domain; Region: Cupin_2; cl09118 269482019027 Peptidase C26; Region: Peptidase_C26; pfam07722 269482019028 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482019029 catalytic triad [active] 269482019030 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482019031 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482019032 putative aminotransferase; Validated; Region: PRK07480 269482019033 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482019034 inhibitor-cofactor binding pocket; inhibition site 269482019035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482019036 catalytic residue [active] 269482019037 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 269482019038 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482019039 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 269482019040 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 269482019041 Walker A/P-loop; other site 269482019042 ATP binding site [chemical binding]; other site 269482019043 Q-loop/lid; other site 269482019044 ABC transporter signature motif; other site 269482019045 Walker B; other site 269482019046 D-loop; other site 269482019047 H-loop/switch region; other site 269482019048 TOBE domain; Region: TOBE_2; cl01440 269482019049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482019050 dimer interface [polypeptide binding]; other site 269482019051 conserved gate region; other site 269482019052 putative PBP binding loops; other site 269482019053 ABC-ATPase subunit interface; other site 269482019054 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482019055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482019056 dimer interface [polypeptide binding]; other site 269482019057 conserved gate region; other site 269482019058 putative PBP binding loops; other site 269482019059 ABC-ATPase subunit interface; other site 269482019060 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 269482019061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019062 FAD dependent oxidoreductase; Region: DAO; pfam01266 269482019063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019064 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482019065 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 269482019066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 269482019067 TolB amino-terminal domain; Region: TolB_N; cl00639 269482019068 glutathione reductase; Validated; Region: PRK06116 269482019069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482019070 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482019071 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482019072 trimer interface [polypeptide binding]; other site 269482019073 eyelet of channel; other site 269482019074 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 269482019075 Chromate transporter; Region: Chromate_transp; pfam02417 269482019076 Chromate transporter; Region: Chromate_transp; pfam02417 269482019077 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482019078 Helix-turn-helix domains; Region: HTH; cl00088 269482019079 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482019080 dimerization interface [polypeptide binding]; other site 269482019081 substrate binding pocket [chemical binding]; other site 269482019082 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 269482019083 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 269482019084 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 269482019085 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 269482019086 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 269482019087 Flagellar regulator YcgR; Region: YcgR; pfam07317 269482019088 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 269482019089 PilZ domain; Region: PilZ; cl01260 269482019090 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 269482019091 Rod binding protein; Region: Rod-binding; cl01626 269482019092 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482019093 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 269482019094 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 269482019095 Flagellar L-ring protein; Region: FlgH; cl00905 269482019096 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 269482019097 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 269482019098 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 269482019099 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 269482019100 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 269482019101 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 269482019102 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 269482019103 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 269482019104 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 269482019105 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 269482019106 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 269482019107 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 269482019108 FlgD Ig-like domain; Region: FlgD_ig; cl15790 269482019109 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 269482019110 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 269482019111 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 269482019112 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 269482019113 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 269482019114 SAF-like; Region: SAF_2; pfam13144 269482019115 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482019116 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 269482019117 FlgN protein; Region: FlgN; cl09176 269482019118 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482019119 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482019120 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 269482019121 active site 269482019122 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 269482019123 Cupin domain; Region: Cupin_2; cl09118 269482019124 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 269482019125 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269482019126 active site 269482019127 NTP binding site [chemical binding]; other site 269482019128 metal binding triad [ion binding]; metal-binding site 269482019129 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 269482019130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269482019131 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 269482019132 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482019133 putative C-terminal domain interface [polypeptide binding]; other site 269482019134 putative GSH binding site (G-site) [chemical binding]; other site 269482019135 putative dimer interface [polypeptide binding]; other site 269482019136 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 269482019137 putative N-terminal domain interface [polypeptide binding]; other site 269482019138 putative dimer interface [polypeptide binding]; other site 269482019139 putative substrate binding pocket (H-site) [chemical binding]; other site 269482019140 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 269482019141 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 269482019142 putative NAD(P) binding site [chemical binding]; other site 269482019143 active site 269482019144 lytic murein transglycosylase; Provisional; Region: PRK11619 269482019145 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269482019146 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482019147 catalytic residue [active] 269482019148 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 269482019149 Helix-turn-helix domains; Region: HTH; cl00088 269482019150 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482019151 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 269482019152 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 269482019153 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 269482019154 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 269482019155 putative active site [active] 269482019156 TraB family; Region: TraB; cl12050 269482019157 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 269482019158 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482019159 Walker A/P-loop; other site 269482019160 ATP binding site [chemical binding]; other site 269482019161 Q-loop/lid; other site 269482019162 ABC transporter signature motif; other site 269482019163 Walker B; other site 269482019164 D-loop; other site 269482019165 H-loop/switch region; other site 269482019166 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482019167 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 269482019168 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269482019169 Walker A/P-loop; other site 269482019170 ATP binding site [chemical binding]; other site 269482019171 Q-loop/lid; other site 269482019172 ABC transporter signature motif; other site 269482019173 Walker B; other site 269482019174 D-loop; other site 269482019175 H-loop/switch region; other site 269482019176 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482019177 dipeptide transporter; Provisional; Region: PRK10913 269482019178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482019179 dimer interface [polypeptide binding]; other site 269482019180 conserved gate region; other site 269482019181 putative PBP binding loops; other site 269482019182 ABC-ATPase subunit interface; other site 269482019183 dipeptide transporter permease DppB; Provisional; Region: PRK10914 269482019184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482019185 dimer interface [polypeptide binding]; other site 269482019186 conserved gate region; other site 269482019187 putative PBP binding loops; other site 269482019188 ABC-ATPase subunit interface; other site 269482019189 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 269482019190 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482019191 peptide binding site [polypeptide binding]; other site 269482019192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482019193 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482019194 putative substrate translocation pore; other site 269482019195 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482019196 Predicted dehydrogenase [General function prediction only]; Region: COG0579 269482019197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482019198 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 269482019199 putative FMN binding site [chemical binding]; other site 269482019200 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482019201 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482019202 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 269482019203 FAD binding pocket [chemical binding]; other site 269482019204 FAD binding motif [chemical binding]; other site 269482019205 phosphate binding motif [ion binding]; other site 269482019206 beta-alpha-beta structure motif; other site 269482019207 NAD binding pocket [chemical binding]; other site 269482019208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 269482019209 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482019210 ATP binding site [chemical binding]; other site 269482019211 Mg2+ binding site [ion binding]; other site 269482019212 G-X-G motif; other site 269482019213 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482019214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482019215 active site 269482019216 phosphorylation site [posttranslational modification] 269482019217 intermolecular recognition site; other site 269482019218 dimerization interface [polypeptide binding]; other site 269482019219 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482019220 DNA binding residues [nucleotide binding] 269482019221 dimerization interface [polypeptide binding]; other site 269482019222 amino acid transporter; Region: 2A0306; TIGR00909 269482019223 Spore germination protein; Region: Spore_permease; cl15802 269482019224 Spore germination protein; Region: Spore_permease; cl15802 269482019225 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 269482019226 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 269482019227 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482019228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 269482019229 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 269482019230 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 269482019231 Flagellar protein FliT; Region: FliT; cl05125 269482019232 Flagellar protein FliS; Region: FliS; cl00654 269482019233 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 269482019234 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 269482019235 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 269482019236 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 269482019237 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 269482019238 FliG C-terminal domain; Region: FliG_C; pfam01706 269482019239 flagellar assembly protein H; Validated; Region: fliH; PRK05687 269482019240 Flagellar assembly protein FliH; Region: FliH; pfam02108 269482019241 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 269482019242 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 269482019243 Walker A motif/ATP binding site; other site 269482019244 Walker B motif; other site 269482019245 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 269482019246 Flagellar FliJ protein; Region: FliJ; pfam02050 269482019247 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 269482019248 choline dehydrogenase; Validated; Region: PRK02106 269482019249 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482019250 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 269482019251 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482019252 NAD(P) binding site [chemical binding]; other site 269482019253 catalytic residues [active] 269482019254 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482019255 Phosphotransferase enzyme family; Region: APH; pfam01636 269482019256 EamA-like transporter family; Region: EamA; cl01037 269482019257 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269482019258 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482019259 active site 269482019260 catalytic tetrad [active] 269482019261 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 269482019262 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269482019263 S-adenosylmethionine synthetase; Validated; Region: PRK05250 269482019264 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 269482019265 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 269482019266 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 269482019267 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 269482019268 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 269482019269 putative acyl-acceptor binding pocket; other site 269482019270 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 269482019271 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 269482019272 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 269482019273 GAF domain; Region: GAF; cl15785 269482019274 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482019275 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482019276 active site 269482019277 DNA binding site [nucleotide binding] 269482019278 Int/Topo IB signature motif; other site 269482019279 PUA domain; Region: PUA; cl00607 269482019280 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 269482019281 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 269482019282 putative RNA binding site [nucleotide binding]; other site 269482019283 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482019284 S-adenosylmethionine binding site [chemical binding]; other site 269482019285 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 269482019286 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 269482019287 P-loop, Walker A motif; other site 269482019288 Base recognition motif; other site 269482019289 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 269482019290 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 269482019291 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 269482019292 active site 269482019293 HslU subunit interaction site [polypeptide binding]; other site 269482019294 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 269482019295 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482019296 Walker A motif; other site 269482019297 ATP binding site [chemical binding]; other site 269482019298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482019299 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482019300 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 269482019301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482019302 active site 269482019303 phosphorylation site [posttranslational modification] 269482019304 intermolecular recognition site; other site 269482019305 dimerization interface [polypeptide binding]; other site 269482019306 Helix-turn-helix domains; Region: HTH; cl00088 269482019307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482019308 dimer interface [polypeptide binding]; other site 269482019309 phosphorylation site [posttranslational modification] 269482019310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482019311 ATP binding site [chemical binding]; other site 269482019312 Mg2+ binding site [ion binding]; other site 269482019313 G-X-G motif; other site 269482019314 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 269482019315 feedback inhibition sensing region; other site 269482019316 homohexameric interface [polypeptide binding]; other site 269482019317 nucleotide binding site [chemical binding]; other site 269482019318 N-acetyl-L-glutamate binding site [chemical binding]; other site 269482019319 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269482019320 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 269482019321 division inhibitor protein; Provisional; Region: slmA; PRK09480 269482019322 Helix-turn-helix domains; Region: HTH; cl00088 269482019323 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 269482019324 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 269482019325 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 269482019326 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269482019327 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 269482019328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482019329 muropeptide transporter; Validated; Region: ampG; PRK11010 269482019330 muropeptide transporter; Reviewed; Region: ampG; PRK11902 269482019331 Peptidase family M48; Region: Peptidase_M48; cl12018 269482019332 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482019333 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482019334 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482019335 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 269482019336 putative NAD(P) binding site [chemical binding]; other site 269482019337 putative substrate binding site [chemical binding]; other site 269482019338 catalytic Zn binding site [ion binding]; other site 269482019339 structural Zn binding site [ion binding]; other site 269482019340 dimer interface [polypeptide binding]; other site 269482019341 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 269482019342 putative active site [active] 269482019343 putative catalytic site [active] 269482019344 putative DNA binding site [nucleotide binding]; other site 269482019345 putative phosphate binding site [ion binding]; other site 269482019346 metal binding site A [ion binding]; metal-binding site 269482019347 putative AP binding site [nucleotide binding]; other site 269482019348 putative metal binding site B [ion binding]; other site 269482019349 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 269482019350 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 269482019351 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 269482019352 GatB domain; Region: GatB_Yqey; cl11497 269482019353 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 269482019354 Amidase; Region: Amidase; cl11426 269482019355 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 269482019356 rod shape-determining protein MreB; Provisional; Region: PRK13927 269482019357 Cell division protein FtsA; Region: FtsA; cl11496 269482019358 rod shape-determining protein MreC; Provisional; Region: PRK13922 269482019359 rod shape-determining protein MreC; Region: MreC; pfam04085 269482019360 rod shape-determining protein MreD; Region: MreD; cl01087 269482019361 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 269482019362 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482019363 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269482019364 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 269482019365 Sel1 repeat; Region: Sel1; cl02723 269482019366 Sel1 repeat; Region: Sel1; cl02723 269482019367 Sel1 repeat; Region: Sel1; cl02723 269482019368 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 269482019369 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269482019370 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482019371 active site 269482019372 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 269482019373 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 269482019374 Ligand Binding Site [chemical binding]; other site 269482019375 Helix-turn-helix domains; Region: HTH; cl00088 269482019376 Winged helix-turn helix; Region: HTH_29; pfam13551 269482019377 Helix-turn-helix domains; Region: HTH; cl00088 269482019378 Winged helix-turn helix; Region: HTH_33; pfam13592 269482019379 Integrase core domain; Region: rve; cl01316 269482019380 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 269482019381 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 269482019382 active site 269482019383 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 269482019384 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482019385 Active Sites [active] 269482019386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 269482019387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019388 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 269482019389 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 269482019390 CysD dimerization site [polypeptide binding]; other site 269482019391 G1 box; other site 269482019392 putative GEF interaction site [polypeptide binding]; other site 269482019393 GTP/Mg2+ binding site [chemical binding]; other site 269482019394 Switch I region; other site 269482019395 G2 box; other site 269482019396 G3 box; other site 269482019397 Switch II region; other site 269482019398 G4 box; other site 269482019399 G5 box; other site 269482019400 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 269482019401 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 269482019402 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 269482019403 ligand-binding site [chemical binding]; other site 269482019404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 269482019405 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 269482019406 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482019407 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 269482019408 putative ligand binding site [chemical binding]; other site 269482019409 putative catalytic site [active] 269482019410 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 269482019411 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 269482019412 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 269482019413 Walker A/P-loop; other site 269482019414 ATP binding site [chemical binding]; other site 269482019415 Q-loop/lid; other site 269482019416 ABC transporter signature motif; other site 269482019417 Walker B; other site 269482019418 D-loop; other site 269482019419 H-loop/switch region; other site 269482019420 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 269482019421 putative carbohydrate binding site [chemical binding]; other site 269482019422 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269482019423 Cupin domain; Region: Cupin_2; cl09118 269482019424 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 269482019425 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 269482019426 substrate binding site; other site 269482019427 tetramer interface; other site 269482019428 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482019429 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 269482019430 NADP binding site [chemical binding]; other site 269482019431 active site 269482019432 putative substrate binding site [chemical binding]; other site 269482019433 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 269482019434 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 269482019435 active site 269482019436 dimer interface [polypeptide binding]; other site 269482019437 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 269482019438 dimer interface [polypeptide binding]; other site 269482019439 active site 269482019440 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 269482019441 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 269482019442 NAD binding site [chemical binding]; other site 269482019443 substrate binding site [chemical binding]; other site 269482019444 homodimer interface [polypeptide binding]; other site 269482019445 active site 269482019446 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 269482019447 Probable Catalytic site; other site 269482019448 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 269482019449 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 269482019450 Phage-related protein, tail component [Function unknown]; Region: COG4733 269482019451 Putative phage tail protein; Region: Phage-tail_3; pfam13550 269482019452 NlpC/P60 family; Region: NLPC_P60; cl11438 269482019453 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 269482019454 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019455 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019456 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019457 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019458 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019459 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 269482019460 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 269482019461 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482019462 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 269482019463 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 269482019464 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 269482019465 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 269482019466 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 269482019467 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 269482019468 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 269482019469 tandem repeat interface [polypeptide binding]; other site 269482019470 oligomer interface [polypeptide binding]; other site 269482019471 active site residues [active] 269482019472 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 269482019473 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 269482019474 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 269482019475 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 269482019476 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 269482019477 ParB-like nuclease domain; Region: ParBc; cl02129 269482019478 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482019479 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482019480 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482019481 Peptidase M15; Region: Peptidase_M15_3; cl01194 269482019482 ParB-like nuclease domain; Region: ParBc; cl02129 269482019483 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482019484 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 269482019485 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482019486 Integrase core domain; Region: rve; cl01316 269482019487 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482019488 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 269482019489 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 269482019490 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 269482019491 active site 269482019492 dimer interface [polypeptide binding]; other site 269482019493 putative DNA-binding cleft [nucleotide binding]; other site 269482019494 hypothetical protein; Validated; Region: PRK07078 269482019495 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482019496 active site 269482019497 metal binding site [ion binding]; metal-binding site 269482019498 interdomain interaction site; other site 269482019499 D5 N terminal like; Region: D5_N; cl07360 269482019500 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 269482019501 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482019502 ATP binding site [chemical binding]; other site 269482019503 putative Mg++ binding site [ion binding]; other site 269482019504 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482019505 nucleotide binding region [chemical binding]; other site 269482019506 ATP-binding site [chemical binding]; other site 269482019507 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 269482019508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269482019509 AAA domain; Region: AAA_24; pfam13479 269482019510 Walker A motif; other site 269482019511 ATP binding site [chemical binding]; other site 269482019512 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482019513 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 269482019514 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482019515 catalytic residues [active] 269482019516 catalytic nucleophile [active] 269482019517 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482019518 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482019519 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482019520 Synaptic Site I dimer interface [polypeptide binding]; other site 269482019521 DNA binding site [nucleotide binding] 269482019522 Recombinase; Region: Recombinase; pfam07508 269482019523 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 269482019524 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482019525 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482019526 non-specific DNA binding site [nucleotide binding]; other site 269482019527 salt bridge; other site 269482019528 sequence-specific DNA binding site [nucleotide binding]; other site 269482019529 putative Zn-ribbon RNA-binding protein; Provisional; Region: PRK14890 269482019530 Response regulator receiver domain; Region: Response_reg; pfam00072 269482019531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482019532 active site 269482019533 phosphorylation site [posttranslational modification] 269482019534 intermolecular recognition site; other site 269482019535 dimerization interface [polypeptide binding]; other site 269482019536 Helix-turn-helix domains; Region: HTH; cl00088 269482019537 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 269482019538 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482019539 dimerization interface [polypeptide binding]; other site 269482019540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482019541 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482019542 dimer interface [polypeptide binding]; other site 269482019543 phosphorylation site [posttranslational modification] 269482019544 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482019545 ATP binding site [chemical binding]; other site 269482019546 Mg2+ binding site [ion binding]; other site 269482019547 G-X-G motif; other site 269482019548 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 269482019549 16S rRNA methyltransferase B; Provisional; Region: PRK10901 269482019550 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 269482019551 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482019552 S-adenosylmethionine binding site [chemical binding]; other site 269482019553 Peptidase family M48; Region: Peptidase_M48; cl12018 269482019554 LysE type translocator; Region: LysE; cl00565 269482019555 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 269482019556 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 269482019557 putative active site [active] 269482019558 substrate binding site [chemical binding]; other site 269482019559 putative cosubstrate binding site; other site 269482019560 catalytic site [active] 269482019561 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 269482019562 substrate binding site [chemical binding]; other site 269482019563 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 269482019564 active site 269482019565 catalytic residues [active] 269482019566 metal binding site [ion binding]; metal-binding site 269482019567 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482019568 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 269482019569 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 269482019570 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482019571 catalytic residues [active] 269482019572 DNA topoisomerase III; Validated; Region: PRK08173 269482019573 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482019574 active site 269482019575 putative interdomain interaction site [polypeptide binding]; other site 269482019576 putative metal-binding site [ion binding]; other site 269482019577 putative nucleotide binding site [chemical binding]; other site 269482019578 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482019579 domain I; other site 269482019580 DNA binding groove [nucleotide binding] 269482019581 phosphate binding site [ion binding]; other site 269482019582 domain II; other site 269482019583 domain III; other site 269482019584 nucleotide binding site [chemical binding]; other site 269482019585 catalytic site [active] 269482019586 domain IV; other site 269482019587 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482019588 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482019589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482019590 Helix-turn-helix domains; Region: HTH; cl00088 269482019591 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482019592 putative effector binding pocket; other site 269482019593 dimerization interface [polypeptide binding]; other site 269482019594 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 269482019595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019596 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 269482019597 active site 269482019598 nucleophile elbow; other site 269482019599 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482019600 CoenzymeA binding site [chemical binding]; other site 269482019601 subunit interaction site [polypeptide binding]; other site 269482019602 PHB binding site; other site 269482019603 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 269482019604 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 269482019605 L-lactate permease; Region: Lactate_perm; cl00701 269482019606 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482019607 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 269482019608 AlkA N-terminal domain; Region: AlkA_N; cl05528 269482019609 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 269482019610 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482019611 minor groove reading motif; other site 269482019612 helix-hairpin-helix signature motif; other site 269482019613 substrate binding pocket [chemical binding]; other site 269482019614 active site 269482019615 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 269482019616 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 269482019617 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482019618 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 269482019619 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482019620 DNA binding site [nucleotide binding] 269482019621 active site 269482019622 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 269482019623 dimer interface [polypeptide binding]; other site 269482019624 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482019625 metal binding site [ion binding]; metal-binding site 269482019626 YaeQ protein; Region: YaeQ; cl01913 269482019627 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 269482019628 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269482019629 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 269482019630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482019631 metal binding site [ion binding]; metal-binding site 269482019632 active site 269482019633 I-site; other site 269482019634 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 269482019635 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 269482019636 trmE is a tRNA modification GTPase; Region: trmE; cd04164 269482019637 G1 box; other site 269482019638 GTP/Mg2+ binding site [chemical binding]; other site 269482019639 Switch I region; other site 269482019640 G2 box; other site 269482019641 Switch II region; other site 269482019642 G3 box; other site 269482019643 G4 box; other site 269482019644 G5 box; other site 269482019645 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 269482019646 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 269482019647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482019648 sequence-specific DNA binding site [nucleotide binding]; other site 269482019649 salt bridge; other site 269482019650 membrane protein insertase; Provisional; Region: PRK01318 269482019651 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 269482019652 Haemolytic domain; Region: Haemolytic; cl00506 269482019653 Ribonuclease P; Region: Ribonuclease_P; cl00457 269482019654 Ribosomal protein L34; Region: Ribosomal_L34; cl00370