-- dump date 20120504_161442 -- class Genbank::misc_feature -- table misc_feature_note -- id note 94122000001 Transposase; Region: DEDD_Tnp_IS110; pfam01548 94122000002 Transposase domain (DUF772); Region: DUF772; pfam05598 94122000003 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 94122000004 DDE superfamily endonuclease; Region: DDE_4; cl15789 94122000005 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 94122000006 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122000007 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 94122000008 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 94122000009 metal-binding site [ion binding] 94122000010 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 94122000011 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122000012 Transcriptional regulators [Transcription]; Region: FadR; COG2186 94122000013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122000014 DNA-binding site [nucleotide binding]; DNA binding site 94122000015 FCD domain; Region: FCD; cl11656 94122000016 outer membrane porin, OprD family; Region: OprD; pfam03573 94122000017 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 94122000018 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 94122000019 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 94122000020 Probable transposase; Region: OrfB_IS605; pfam01385 94122000021 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 94122000022 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 94122000023 Nitrogen regulatory protein P-II; Region: P-II; cl00412 94122000024 Nitrogen regulatory protein P-II; Region: P-II; smart00938 94122000025 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 94122000026 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 94122000027 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 94122000028 Cation efflux family; Region: Cation_efflux; cl00316 94122000029 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 94122000030 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 94122000031 DNA binding residues [nucleotide binding] 94122000032 dimer interface [polypeptide binding]; other site 94122000033 putative metal binding site [ion binding]; other site 94122000034 Helix-turn-helix domains; Region: HTH; cl00088 94122000035 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 94122000036 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122000037 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 94122000038 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 94122000039 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 94122000040 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122000041 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 94122000042 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122000043 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 94122000044 ATP binding site [chemical binding]; other site 94122000045 putative Mg++ binding site [ion binding]; other site 94122000046 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cl07672 94122000047 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 94122000048 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 94122000049 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 94122000050 active site 94122000051 DNA binding site [nucleotide binding] 94122000052 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 94122000053 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 94122000054 Catalytic site [active] 94122000055 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 94122000056 Catalytic site [active] 94122000057 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 94122000058 Protein of unknown function (DUF998); Region: DUF998; pfam06197 94122000059 Protein of unknown function DUF262; Region: DUF262; cl14890 94122000060 RecT family; Region: RecT; cl04285 94122000061 RecT family; Region: RecT; cl04285 94122000062 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 94122000063 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122000064 catalytic residue [active] 94122000065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 94122000066 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 94122000067 Probable transposase; Region: OrfB_IS605; pfam01385 94122000068 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 94122000069 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 94122000070 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 94122000071 catalytic loop [active] 94122000072 iron binding site [ion binding]; other site 94122000073 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 94122000074 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 94122000075 cofactor binding site; other site 94122000076 DNA binding site [nucleotide binding] 94122000077 substrate interaction site [chemical binding]; other site 94122000078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 94122000079 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 94122000080 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 94122000081 metal ion-dependent adhesion site (MIDAS); other site 94122000082 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 94122000083 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 94122000084 Walker A motif; other site 94122000085 ATP binding site [chemical binding]; other site 94122000086 Walker B motif; other site 94122000087 arginine finger; other site 94122000088 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 94122000089 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 94122000090 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122000091 Family description; Region: UvrD_C_2; cl15862 94122000092 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14877 94122000093 Type-1V conjugative transfer system mating pair stabilisation; Region: TraN; pfam06986 94122000094 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 94122000095 TraU protein; Region: TraU; cl06067 94122000096 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 94122000097 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 94122000098 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 94122000099 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 94122000100 RES domain; Region: RES; cl02411 94122000101 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 94122000102 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 94122000103 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 94122000104 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 94122000105 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 94122000106 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 94122000107 ATP binding site [chemical binding]; other site 94122000108 putative Mg++ binding site [ion binding]; other site 94122000109 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 94122000110 nucleotide binding region [chemical binding]; other site 94122000111 ATP-binding site [chemical binding]; other site 94122000112 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 94122000113 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 94122000114 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 94122000115 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 94122000116 exonuclease VIII; Reviewed; Region: PRK09709 94122000117 SAP domain; Region: SAP; cl02640 94122000118 exonuclease VIII; Reviewed; Region: PRK09709 94122000119 Abi-like protein; Region: Abi_2; cl01988 94122000120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 94122000121 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 94122000122 plasmid-partitioning protein; Provisional; Region: PRK13698 94122000123 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 94122000124 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 94122000125 P-loop; other site 94122000126 Magnesium ion binding site [ion binding]; other site 94122000127 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 94122000128 Magnesium ion binding site [ion binding]; other site 94122000129 Initiator Replication protein; Region: Rep_3; cl03080 94122000130 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 94122000131 dimer interface [polypeptide binding]; other site 94122000132 ssDNA binding site [nucleotide binding]; other site 94122000133 tetramer (dimer of dimers) interface [polypeptide binding]; other site 94122000134 Probable transposase; Region: OrfB_IS605; pfam01385 94122000135 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 94122000136 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 94122000137 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 94122000138 Transposase IS200 like; Region: Y1_Tnp; cl00848 94122000139 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 94122000140 non-specific DNA binding site [nucleotide binding]; other site 94122000141 salt bridge; other site 94122000142 sequence-specific DNA binding site [nucleotide binding]; other site 94122000143 AAA domain; Region: AAA_13; pfam13166 94122000144 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122000145 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122000146 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 94122000147 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 94122000148 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122000149 Protein of unknown function (DUF511); Region: DUF511; cl01114 94122000150 Protein of unknown function (DUF511); Region: DUF511; cl01114 94122000151 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 94122000152 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122000153 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 94122000154 ATP binding site [chemical binding]; other site 94122000155 putative Mg++ binding site [ion binding]; other site 94122000156 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 94122000157 mobile mystery protein B; Region: mob_myst_B; TIGR02613 94122000158 Fic/DOC family; Region: Fic; cl00960 94122000159 mobile mystery protein A; Region: mob_myst_A; TIGR02612 94122000160 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 94122000161 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 94122000162 active site 94122000163 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 94122000164 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 94122000165 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 94122000166 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 94122000167 active site 94122000168 catalytic residues [active] 94122000169 DNA binding site [nucleotide binding] 94122000170 Int/Topo IB signature motif; other site 94122000171 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 94122000172 active site 94122000173 catalytic residues [active] 94122000174 DNA binding site [nucleotide binding] 94122000175 Int/Topo IB signature motif; other site 94122000176 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 94122000177 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 94122000178 TraE protein; Region: TraE; cl05060 94122000179 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 94122000180 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 94122000181 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 94122000182 Putative helicase; Region: TraI_2; pfam07514 94122000183 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 94122000184 PRTRC system protein D; Region: PRTRC_D; TIGR03739 94122000185 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 94122000186 catalytic residues [active] 94122000187 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 94122000188 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 94122000189 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 94122000190 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122000191 ligand binding site [chemical binding]; other site 94122000192 Domain of unknown function (DUF4165); Region: DUF4165; pfam13752 94122000193 Bacterial Ig-like domain (group 3); Region: Big_3_2; pfam12245 94122000194 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 94122000195 Domain of unknown function (DUF4165); Region: DUF4165; pfam13752 94122000196 Bacterial Ig-like domain (group 3); Region: Big_3_2; pfam12245 94122000197 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 94122000198 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 94122000199 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 94122000200 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 94122000201 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 94122000202 Integrase core domain; Region: rve; cl01316 94122000203 Protein of unknown function, DUF; Region: DUF411; cl01142 94122000204 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122000205 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122000206 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122000207 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 94122000208 Bacterial Ig-like domain; Region: Big_5; cl01012 94122000209 Copper resistance protein D; Region: CopD; cl00563 94122000210 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 94122000211 outer membrane porin, OprD family; Region: OprD; pfam03573 94122000212 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 94122000213 sensor kinase CusS; Provisional; Region: PRK09835 94122000214 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 94122000215 dimerization interface [polypeptide binding]; other site 94122000216 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 94122000217 dimer interface [polypeptide binding]; other site 94122000218 phosphorylation site [posttranslational modification] 94122000219 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 94122000220 ATP binding site [chemical binding]; other site 94122000221 Mg2+ binding site [ion binding]; other site 94122000222 G-X-G motif; other site 94122000223 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 94122000224 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 94122000225 active site 94122000226 phosphorylation site [posttranslational modification] 94122000227 intermolecular recognition site; other site 94122000228 dimerization interface [polypeptide binding]; other site 94122000229 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 94122000230 DNA binding site [nucleotide binding] 94122000231 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 94122000232 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 94122000233 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 94122000234 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 94122000235 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 94122000236 Protein of unknown function, DUF; Region: DUF411; cl01142 94122000237 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 94122000238 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 94122000239 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 94122000240 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 94122000241 motif II; other site 94122000242 putative peptidase; Provisional; Region: PRK11649 94122000243 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 94122000244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122000245 dimer interface [polypeptide binding]; other site 94122000246 putative CheW interface [polypeptide binding]; other site 94122000247 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 94122000248 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 94122000249 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000250 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000251 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122000252 DNA binding residues [nucleotide binding] 94122000253 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 94122000254 putative mercuric reductase; Provisional; Region: PRK13748 94122000255 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 94122000256 metal-binding site [ion binding] 94122000257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122000258 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 94122000259 MerC mercury resistance protein; Region: MerC; cl03934 94122000260 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 94122000261 metal-binding site [ion binding] 94122000262 MerT mercuric transport protein; Region: MerT; cl03578 94122000263 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 94122000264 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 94122000265 DNA binding residues [nucleotide binding] 94122000266 dimer interface [polypeptide binding]; other site 94122000267 mercury binding site [ion binding]; other site 94122000268 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 94122000269 DNA binding site [nucleotide binding] 94122000270 dimer interface [polypeptide binding]; other site 94122000271 active site 94122000272 Int/Topo IB signature motif; other site 94122000273 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 94122000274 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 94122000275 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000276 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000277 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 94122000278 multiple promoter invertase; Provisional; Region: mpi; PRK13413 94122000279 catalytic residues [active] 94122000280 catalytic nucleophile [active] 94122000281 Presynaptic Site I dimer interface [polypeptide binding]; other site 94122000282 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 94122000283 Synaptic Flat tetramer interface [polypeptide binding]; other site 94122000284 Synaptic Site I dimer interface [polypeptide binding]; other site 94122000285 DNA binding site [nucleotide binding] 94122000286 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 94122000287 DNA-binding interface [nucleotide binding]; DNA binding site 94122000288 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 94122000289 active site 94122000290 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 94122000291 lipoprotein signal peptidase; Provisional; Region: PRK14787 94122000292 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 94122000293 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 94122000294 DNA binding residues [nucleotide binding] 94122000295 dimer interface [polypeptide binding]; other site 94122000296 putative metal binding site [ion binding]; other site 94122000297 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122000298 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122000299 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 94122000300 SelR domain; Region: SelR; pfam01641 94122000301 Protein of unknown function, DUF417; Region: DUF417; cl01162 94122000302 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 94122000303 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 94122000304 GAF domain; Region: GAF; cl15785 94122000305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122000306 metal binding site [ion binding]; metal-binding site 94122000307 active site 94122000308 I-site; other site 94122000309 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122000310 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 94122000311 catalytic residues [active] 94122000312 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 94122000313 SelR domain; Region: SelR; pfam01641 94122000314 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 94122000315 GSH binding site [chemical binding]; other site 94122000316 catalytic residues [active] 94122000317 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122000318 Cupin domain; Region: Cupin_2; cl09118 94122000319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122000320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122000321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122000322 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 94122000323 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 94122000324 Helix-turn-helix domains; Region: HTH; cl00088 94122000325 Integrase core domain; Region: rve; cl01316 94122000326 Electron transfer DM13; Region: DM13; cl02735 94122000327 putative transcriptional regulator MerR; Provisional; Region: PRK13752 94122000328 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 94122000329 DNA binding residues [nucleotide binding] 94122000330 dimer interface [polypeptide binding]; other site 94122000331 mercury binding site [ion binding]; other site 94122000332 MerT mercuric transport protein; Region: MerT; cl03578 94122000333 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 94122000334 metal-binding site [ion binding] 94122000335 MerC mercury resistance protein; Region: MerC; cl03934 94122000336 putative mercuric reductase; Provisional; Region: PRK13748 94122000337 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 94122000338 metal-binding site [ion binding] 94122000339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122000340 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 94122000341 transcriptional regulator MerD; Provisional; Region: PRK13749 94122000342 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 94122000343 DNA binding residues [nucleotide binding] 94122000344 putative dimer interface [polypeptide binding]; other site 94122000345 MerE protein; Region: MerE; cl04911 94122000346 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 94122000347 Y-family of DNA polymerases; Region: PolY; cl12025 94122000348 DNA binding site [nucleotide binding] 94122000349 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 94122000350 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 94122000351 active site 94122000352 NTP binding site [chemical binding]; other site 94122000353 metal binding triad [ion binding]; metal-binding site 94122000354 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 94122000355 active site 94122000356 nucleophile elbow; other site 94122000357 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 94122000358 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 94122000359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000360 ATP binding site [chemical binding]; other site 94122000361 substrate interface [chemical binding]; other site 94122000362 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 94122000363 active site 94122000364 NTP binding site [chemical binding]; other site 94122000365 metal binding triad [ion binding]; metal-binding site 94122000366 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 94122000367 non-specific DNA binding site [nucleotide binding]; other site 94122000368 salt bridge; other site 94122000369 sequence-specific DNA binding site [nucleotide binding]; other site 94122000370 Domain of unknown function (DUF955); Region: DUF955; cl01076 94122000371 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 94122000372 active site 94122000373 catalytic residues [active] 94122000374 DNA binding site [nucleotide binding] 94122000375 Int/Topo IB signature motif; other site 94122000376 DNA-sulfur modification-associated; Region: DndB; cl14002 94122000377 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 94122000378 Ligand Binding Site [chemical binding]; other site 94122000379 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000380 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 94122000381 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 94122000382 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 94122000383 Chromate transporter; Region: Chromate_transp; pfam02417 94122000384 Chromate transporter; Region: Chromate_transp; pfam02417 94122000385 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 94122000386 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 94122000387 DNA binding site [nucleotide binding] 94122000388 dimer interface [polypeptide binding]; other site 94122000389 active site 94122000390 Int/Topo IB signature motif; other site 94122000391 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 94122000392 Birnavirus RNA dependent RNA polymerase (VP1); Region: Birna_RdRp; pfam04197 94122000393 Methyltransferase domain; Region: Methyltransf_27; pfam13708 94122000394 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 94122000395 DNA binding site [nucleotide binding] 94122000396 dimer interface [polypeptide binding]; other site 94122000397 active site 94122000398 Int/Topo IB signature motif; other site 94122000399 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 94122000400 HupE / UreJ protein; Region: HupE_UreJ; cl01011 94122000401 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 94122000402 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 94122000403 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 94122000404 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 94122000405 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 94122000406 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 94122000407 Helix-turn-helix domains; Region: HTH; cl00088 94122000408 hypothetical protein; Provisional; Region: PRK09272 94122000409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122000410 Helix-turn-helix domains; Region: HTH; cl00088 94122000411 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 94122000412 dimerization interface [polypeptide binding]; other site 94122000413 Predicted membrane protein [Function unknown]; Region: COG4125 94122000414 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 94122000415 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 94122000416 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 94122000417 S-adenosylmethionine binding site [chemical binding]; other site 94122000418 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 94122000419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000420 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 94122000421 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122000422 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 94122000423 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 94122000424 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 94122000425 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 94122000426 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 94122000427 trmE is a tRNA modification GTPase; Region: trmE; cd04164 94122000428 G1 box; other site 94122000429 GTP/Mg2+ binding site [chemical binding]; other site 94122000430 Switch I region; other site 94122000431 G2 box; other site 94122000432 Switch II region; other site 94122000433 G3 box; other site 94122000434 G4 box; other site 94122000435 G5 box; other site 94122000436 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 94122000437 membrane protein insertase; Provisional; Region: PRK01318 94122000438 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 94122000439 Haemolytic domain; Region: Haemolytic; cl00506 94122000440 Ribonuclease P; Region: Ribonuclease_P; cl00457 94122000441 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 94122000442 DnaA N-terminal domain; Region: DnaA_N; pfam11638 94122000443 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 94122000444 Walker A motif; other site 94122000445 ATP binding site [chemical binding]; other site 94122000446 Walker B motif; other site 94122000447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122000448 arginine finger; other site 94122000449 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 94122000450 DnaA box-binding interface [nucleotide binding]; other site 94122000451 DNA polymerase III subunit beta; Validated; Region: PRK05643 94122000452 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 94122000453 putative DNA binding surface [nucleotide binding]; other site 94122000454 dimer interface [polypeptide binding]; other site 94122000455 beta-clamp/clamp loader binding surface; other site 94122000456 beta-clamp/translesion DNA polymerase binding surface; other site 94122000457 recombination protein F; Reviewed; Region: recF; PRK00064 94122000458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122000459 Walker A/P-loop; other site 94122000460 ATP binding site [chemical binding]; other site 94122000461 Q-loop/lid; other site 94122000462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122000463 ABC transporter signature motif; other site 94122000464 Walker B; other site 94122000465 D-loop; other site 94122000466 H-loop/switch region; other site 94122000467 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 94122000468 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 94122000469 Mg2+ binding site [ion binding]; other site 94122000470 G-X-G motif; other site 94122000471 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 94122000472 anchoring element; other site 94122000473 dimer interface [polypeptide binding]; other site 94122000474 ATP binding site [chemical binding]; other site 94122000475 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 94122000476 active site 94122000477 putative metal-binding site [ion binding]; other site 94122000478 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 94122000479 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122000480 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 94122000481 putative C-terminal domain interface [polypeptide binding]; other site 94122000482 putative GSH binding site (G-site) [chemical binding]; other site 94122000483 putative dimer interface [polypeptide binding]; other site 94122000484 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 94122000485 putative N-terminal domain interface [polypeptide binding]; other site 94122000486 putative dimer interface [polypeptide binding]; other site 94122000487 putative substrate binding pocket (H-site) [chemical binding]; other site 94122000488 Helix-turn-helix domains; Region: HTH; cl00088 94122000489 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 94122000490 dimerization interface [polypeptide binding]; other site 94122000491 HDOD domain; Region: HDOD; pfam08668 94122000492 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122000493 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 94122000494 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 94122000495 dimer interface [polypeptide binding]; other site 94122000496 motif 1; other site 94122000497 active site 94122000498 motif 2; other site 94122000499 motif 3; other site 94122000500 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 94122000501 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 94122000502 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122000503 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 94122000504 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 94122000505 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 94122000506 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 94122000507 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 94122000508 active site 94122000509 MOSC domain; Region: MOSC; pfam03473 94122000510 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 94122000511 CPxP motif; other site 94122000512 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 94122000513 heme-binding site [chemical binding]; other site 94122000514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122000515 metal binding site [ion binding]; metal-binding site 94122000516 active site 94122000517 I-site; other site 94122000518 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 94122000519 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 94122000520 dimer interface [polypeptide binding]; other site 94122000521 active site 94122000522 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 94122000523 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 94122000524 substrate binding site [chemical binding]; other site 94122000525 oxyanion hole (OAH) forming residues; other site 94122000526 trimer interface [polypeptide binding]; other site 94122000527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000528 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 94122000529 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 94122000530 proline dipeptidase; Provisional; Region: PRK13607 94122000531 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 94122000532 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 94122000533 active site 94122000534 hypothetical protein; Provisional; Region: PRK11568 94122000535 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 94122000536 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 94122000537 Cation transport protein; Region: TrkH; cl10514 94122000538 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 94122000539 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122000540 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 94122000541 dimerization interface [polypeptide binding]; other site 94122000542 putative DNA binding site [nucleotide binding]; other site 94122000543 putative Zn2+ binding site [ion binding]; other site 94122000544 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122000545 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 94122000546 Cation transport protein; Region: TrkH; cl10514 94122000547 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 94122000548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000549 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 94122000550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000551 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 94122000552 16S rRNA methyltransferase B; Provisional; Region: PRK10901 94122000553 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 94122000554 putative RNA binding site [nucleotide binding]; other site 94122000555 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 94122000556 S-adenosylmethionine binding site [chemical binding]; other site 94122000557 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 94122000558 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 94122000559 putative active site [active] 94122000560 substrate binding site [chemical binding]; other site 94122000561 putative cosubstrate binding site; other site 94122000562 catalytic site [active] 94122000563 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 94122000564 substrate binding site [chemical binding]; other site 94122000565 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 94122000566 active site 94122000567 catalytic residues [active] 94122000568 metal binding site [ion binding]; metal-binding site 94122000569 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122000570 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 94122000571 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 94122000572 Protein of unknown function (DUF494); Region: DUF494; cl01103 94122000573 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 94122000574 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 94122000575 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 94122000576 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 94122000577 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 94122000578 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 94122000579 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 94122000580 apolar tunnel; other site 94122000581 heme binding site [chemical binding]; other site 94122000582 dimerization interface [polypeptide binding]; other site 94122000583 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 94122000584 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 94122000585 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 94122000586 shikimate binding site; other site 94122000587 NAD(P) binding site [chemical binding]; other site 94122000588 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 94122000589 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 94122000590 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 94122000591 trimer interface [polypeptide binding]; other site 94122000592 putative metal binding site [ion binding]; other site 94122000593 Flagellin N-methylase; Region: FliB; cl00497 94122000594 Helix-turn-helix domains; Region: HTH; cl00088 94122000595 Rrf2 family protein; Region: rrf2_super; TIGR00738 94122000596 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 94122000597 NodB motif; other site 94122000598 putative active site [active] 94122000599 putative catalytic site [active] 94122000600 Zn binding site [ion binding]; other site 94122000601 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 94122000602 C-terminal peptidase (prc); Region: prc; TIGR00225 94122000603 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 94122000604 protein binding site [polypeptide binding]; other site 94122000605 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 94122000606 Catalytic dyad [active] 94122000607 AmiB activator; Provisional; Region: PRK11637 94122000608 Sulfatase; Region: Sulfatase; cl10460 94122000609 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 94122000610 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 94122000611 active site residue [active] 94122000612 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; cd00557 94122000613 SecA binding site; other site 94122000614 Preprotein binding site; other site 94122000615 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 94122000616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000617 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 94122000618 HI0933-like protein; Region: HI0933_like; pfam03486 94122000619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000620 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 94122000621 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 94122000622 Cation transport protein; Region: TrkH; cl10514 94122000623 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 94122000624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122000625 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122000626 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 94122000627 active site 94122000628 phosphorylation site [posttranslational modification] 94122000629 intermolecular recognition site; other site 94122000630 dimerization interface [polypeptide binding]; other site 94122000631 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 94122000632 DNA binding site [nucleotide binding] 94122000633 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 94122000634 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 94122000635 dimer interface [polypeptide binding]; other site 94122000636 phosphorylation site [posttranslational modification] 94122000637 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 94122000638 ATP binding site [chemical binding]; other site 94122000639 Mg2+ binding site [ion binding]; other site 94122000640 G-X-G motif; other site 94122000641 Pirin-related protein [General function prediction only]; Region: COG1741 94122000642 Cupin domain; Region: Cupin_2; cl09118 94122000643 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 94122000644 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122000645 NlpC/P60 family; Region: NLPC_P60; cl11438 94122000646 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 94122000647 putative substrate translocation pore; other site 94122000648 putative sialic acid transporter; Provisional; Region: PRK03893 94122000649 Transcriptional regulators [Transcription]; Region: PurR; COG1609 94122000650 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 94122000651 DNA binding site [nucleotide binding] 94122000652 domain linker motif; other site 94122000653 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_3; cd06279 94122000654 putative dimerization interface [polypeptide binding]; other site 94122000655 putative ligand binding site [chemical binding]; other site 94122000656 sucrose phosphorylase; Provisional; Region: PRK13840 94122000657 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 94122000658 active site 94122000659 homodimer interface [polypeptide binding]; other site 94122000660 catalytic site [active] 94122000661 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 94122000662 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 94122000663 putative substrate translocation pore; other site 94122000664 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 94122000665 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 94122000666 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 94122000667 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 94122000668 putative substrate binding site [chemical binding]; other site 94122000669 putative ATP binding site [chemical binding]; other site 94122000670 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 94122000671 MPT binding site; other site 94122000672 trimer interface [polypeptide binding]; other site 94122000673 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 94122000674 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 94122000675 conserved cys residue [active] 94122000676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122000677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122000678 Phage shock protein B; Region: PspB; cl05946 94122000679 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 94122000680 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122000681 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 94122000682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122000683 Walker A/P-loop; other site 94122000684 ATP binding site [chemical binding]; other site 94122000685 Q-loop/lid; other site 94122000686 ABC transporter signature motif; other site 94122000687 Walker B; other site 94122000688 D-loop; other site 94122000689 H-loop/switch region; other site 94122000690 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 94122000691 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 94122000692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122000693 DNA-binding site [nucleotide binding]; DNA binding site 94122000694 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 94122000695 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 94122000696 Walker A/P-loop; other site 94122000697 ATP binding site [chemical binding]; other site 94122000698 Q-loop/lid; other site 94122000699 ABC transporter signature motif; other site 94122000700 Walker B; other site 94122000701 D-loop; other site 94122000702 H-loop/switch region; other site 94122000703 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 94122000704 AMP-binding enzyme; Region: AMP-binding; cl15778 94122000705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122000706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122000707 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 94122000708 active site 94122000709 HPP family; Region: HPP; pfam04982 94122000710 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122000711 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 94122000712 active site 94122000713 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 94122000714 DNA binding residues [nucleotide binding] 94122000715 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 94122000716 putative dimer interface [polypeptide binding]; other site 94122000717 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122000718 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 94122000719 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 94122000720 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 94122000721 putative transposase OrfB; Reviewed; Region: PHA02517 94122000722 Integrase core domain; Region: rve; cl01316 94122000723 Integrase core domain; Region: rve_3; cl15866 94122000724 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122000725 Helix-turn-helix domains; Region: HTH; cl00088 94122000726 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 94122000727 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 94122000728 FAD binding pocket [chemical binding]; other site 94122000729 FAD binding motif [chemical binding]; other site 94122000730 phosphate binding motif [ion binding]; other site 94122000731 NAD binding pocket [chemical binding]; other site 94122000732 imidazolonepropionase; Validated; Region: PRK09356 94122000733 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 94122000734 active site 94122000735 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 94122000736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122000737 DNA-binding site [nucleotide binding]; DNA binding site 94122000738 UTRA domain; Region: UTRA; cl01230 94122000739 urocanate hydratase; Provisional; Region: PRK05414 94122000740 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 94122000741 active sites [active] 94122000742 tetramer interface [polypeptide binding]; other site 94122000743 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 94122000744 4Fe-4S binding domain; Region: Fer4; cl02805 94122000745 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 94122000746 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 94122000747 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 94122000748 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 94122000749 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 94122000750 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 94122000751 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 94122000752 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 94122000753 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 94122000754 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 94122000755 G1 box; other site 94122000756 putative GEF interaction site [polypeptide binding]; other site 94122000757 GTP/Mg2+ binding site [chemical binding]; other site 94122000758 Switch I region; other site 94122000759 G2 box; other site 94122000760 G3 box; other site 94122000761 Switch II region; other site 94122000762 G4 box; other site 94122000763 G5 box; other site 94122000764 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 94122000765 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 94122000766 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 94122000767 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 94122000768 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 94122000769 putative inner membrane protein; Provisional; Region: PRK11099 94122000770 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 94122000771 CPxP motif; other site 94122000772 Peptidase family M48; Region: Peptidase_M48; cl12018 94122000773 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 94122000774 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 94122000775 Protein of unknown function, DUF481; Region: DUF481; cl01213 94122000776 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 94122000777 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 94122000778 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 94122000779 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122000780 LysE type translocator; Region: LysE; cl00565 94122000781 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 94122000782 putative acyl-acceptor binding pocket; other site 94122000783 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 94122000784 NRDE protein; Region: NRDE; cl01315 94122000785 MarC family integral membrane protein; Region: MarC; cl00919 94122000786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 94122000787 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 94122000788 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 94122000789 UTRA domain; Region: UTRA; cl01230 94122000790 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 94122000791 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 94122000792 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 94122000793 Domain of unknown function (DUF333); Region: DUF333; pfam03891 94122000794 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 94122000795 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 94122000796 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 94122000797 ATP binding site [chemical binding]; other site 94122000798 substrate interface [chemical binding]; other site 94122000799 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 94122000800 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 94122000801 dimer interface [polypeptide binding]; other site 94122000802 putative functional site; other site 94122000803 putative MPT binding site; other site 94122000804 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 94122000805 Ferritin-like domain; Region: Ferritin; pfam00210 94122000806 ferroxidase diiron center [ion binding]; other site 94122000807 Nitrate and nitrite sensing; Region: NIT; pfam08376 94122000808 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 94122000809 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 94122000810 PAS domain; Region: PAS_9; pfam13426 94122000811 putative active site [active] 94122000812 heme pocket [chemical binding]; other site 94122000813 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122000814 metal binding site [ion binding]; metal-binding site 94122000815 active site 94122000816 I-site; other site 94122000817 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 94122000818 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 94122000819 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 94122000820 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 94122000821 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 94122000822 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 94122000823 GIY-YIG motif/motif A; other site 94122000824 putative active site [active] 94122000825 putative metal binding site [ion binding]; other site 94122000826 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 94122000827 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 94122000828 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 94122000829 S-adenosylmethionine binding site [chemical binding]; other site 94122000830 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 94122000831 putative active site [active] 94122000832 Zn binding site [ion binding]; other site 94122000833 Fusaric acid resistance protein family; Region: FUSC; pfam04632 94122000834 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 94122000835 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 94122000836 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122000837 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122000838 ligand binding site [chemical binding]; other site 94122000839 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122000840 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 94122000841 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 94122000842 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_ATP; cd00484 94122000843 active site 94122000844 substrate-binding site [chemical binding]; other site 94122000845 metal-binding site [ion binding] 94122000846 ATP binding site [chemical binding]; other site 94122000847 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 94122000848 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 94122000849 dimerization interface [polypeptide binding]; other site 94122000850 domain crossover interface; other site 94122000851 redox-dependent activation switch; other site 94122000852 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 94122000853 RNA binding surface [nucleotide binding]; other site 94122000854 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 94122000855 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 94122000856 type II secretion system protein D; Region: type_II_gspD; TIGR02517 94122000857 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 94122000858 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 94122000859 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 94122000860 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 94122000861 type II secretion system protein E; Region: type_II_gspE; TIGR02533 94122000862 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 94122000863 Walker A motif; other site 94122000864 ATP binding site [chemical binding]; other site 94122000865 Walker B motif; other site 94122000866 type II secretion system protein F; Region: GspF; TIGR02120 94122000867 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122000868 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122000869 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122000870 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 94122000871 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 94122000872 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 94122000873 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 94122000874 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122000875 type II secretion system protein J; Region: gspJ; TIGR01711 94122000876 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 94122000877 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 94122000878 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 94122000879 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 94122000880 GspL periplasmic domain; Region: GspL_C; cl14909 94122000881 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 94122000882 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 94122000883 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 94122000884 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 94122000885 motif II; other site 94122000886 Cupin domain; Region: Cupin_2; cl09118 94122000887 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 94122000888 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122000889 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 94122000890 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122000891 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 94122000892 Phage Tail Collar Domain; Region: Collar; pfam07484 94122000893 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 94122000894 Interdomain contacts; other site 94122000895 Cytokine receptor motif; other site 94122000896 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000897 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000898 Ca2+ binding site [ion binding]; other site 94122000899 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000900 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000901 Ca2+ binding site [ion binding]; other site 94122000902 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000903 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000904 Ca2+ binding site [ion binding]; other site 94122000905 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000906 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000907 Ca2+ binding site [ion binding]; other site 94122000908 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000909 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000910 Ca2+ binding site [ion binding]; other site 94122000911 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000912 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000913 Ca2+ binding site [ion binding]; other site 94122000914 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000915 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000916 Ca2+ binding site [ion binding]; other site 94122000917 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000918 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000919 Ca2+ binding site [ion binding]; other site 94122000920 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000921 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000922 Ca2+ binding site [ion binding]; other site 94122000923 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000924 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000925 Ca2+ binding site [ion binding]; other site 94122000926 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000927 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000928 Ca2+ binding site [ion binding]; other site 94122000929 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000930 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000931 Ca2+ binding site [ion binding]; other site 94122000932 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000933 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000934 Ca2+ binding site [ion binding]; other site 94122000935 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 94122000936 Cadherin repeat-like domain; Region: CA_like; cl15786 94122000937 Ca2+ binding site [ion binding]; other site 94122000938 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 94122000939 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 94122000940 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 94122000941 dimer interface [polypeptide binding]; other site 94122000942 ADP-ribose binding site [chemical binding]; other site 94122000943 active site 94122000944 nudix motif; other site 94122000945 metal binding site [ion binding]; metal-binding site 94122000946 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 94122000947 active site 94122000948 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 94122000949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122000950 Coenzyme A binding pocket [chemical binding]; other site 94122000951 WHG domain; Region: WHG; pfam13305 94122000952 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 94122000953 putative substrate translocation pore; other site 94122000954 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 94122000955 putative acyl-acceptor binding pocket; other site 94122000956 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 94122000957 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 94122000958 active site residue [active] 94122000959 selenophosphate synthetase; Provisional; Region: PRK00943 94122000960 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 94122000961 dimerization interface [polypeptide binding]; other site 94122000962 putative ATP binding site [chemical binding]; other site 94122000963 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 94122000964 Di-iron ligands [ion binding]; other site 94122000965 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 94122000966 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 94122000967 Helix-turn-helix domains; Region: HTH; cl00088 94122000968 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 94122000969 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 94122000970 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 94122000971 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 94122000972 RNA/DNA binding site [nucleotide binding]; other site 94122000973 RRM dimerization site [polypeptide binding]; other site 94122000974 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 94122000975 FAD binding domain; Region: FAD_binding_4; pfam01565 94122000976 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 94122000977 Helix-turn-helix domains; Region: HTH; cl00088 94122000978 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 94122000979 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 94122000980 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 94122000981 pantothenate kinase; Provisional; Region: PRK05439 94122000982 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 94122000983 ATP-binding site [chemical binding]; other site 94122000984 CoA-binding site [chemical binding]; other site 94122000985 Mg2+-binding site [ion binding]; other site 94122000986 elongation factor Tu; Reviewed; Region: PRK00049 94122000987 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 94122000988 G1 box; other site 94122000989 GEF interaction site [polypeptide binding]; other site 94122000990 GTP/Mg2+ binding site [chemical binding]; other site 94122000991 Switch I region; other site 94122000992 G2 box; other site 94122000993 G3 box; other site 94122000994 Switch II region; other site 94122000995 G4 box; other site 94122000996 G5 box; other site 94122000997 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 94122000998 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 94122000999 Antibiotic Binding Site [chemical binding]; other site 94122001000 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 94122001001 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 94122001002 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 94122001003 putative homodimer interface [polypeptide binding]; other site 94122001004 KOW motif; Region: KOW; cl00354 94122001005 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 94122001006 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 94122001007 23S rRNA interface [nucleotide binding]; other site 94122001008 L7/L12 interface [polypeptide binding]; other site 94122001009 putative thiostrepton binding site; other site 94122001010 L25 interface [polypeptide binding]; other site 94122001011 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 94122001012 mRNA/rRNA interface [nucleotide binding]; other site 94122001013 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 94122001014 23S rRNA interface [nucleotide binding]; other site 94122001015 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 94122001016 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 94122001017 core dimer interface [polypeptide binding]; other site 94122001018 peripheral dimer interface [polypeptide binding]; other site 94122001019 L10 interface [polypeptide binding]; other site 94122001020 L11 interface [polypeptide binding]; other site 94122001021 putative EF-Tu interaction site [polypeptide binding]; other site 94122001022 putative EF-G interaction site [polypeptide binding]; other site 94122001023 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 94122001024 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 94122001025 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 94122001026 RPB11 interaction site [polypeptide binding]; other site 94122001027 RPB12 interaction site [polypeptide binding]; other site 94122001028 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 94122001029 RPB3 interaction site [polypeptide binding]; other site 94122001030 RPB1 interaction site [polypeptide binding]; other site 94122001031 RPB11 interaction site [polypeptide binding]; other site 94122001032 RPB10 interaction site [polypeptide binding]; other site 94122001033 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 94122001034 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 94122001035 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 94122001036 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 94122001037 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 94122001038 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 94122001039 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 94122001040 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 94122001041 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 94122001042 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 94122001043 DNA binding site [nucleotide binding] 94122001044 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 94122001045 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 94122001046 S17 interaction site [polypeptide binding]; other site 94122001047 S8 interaction site; other site 94122001048 16S rRNA interaction site [nucleotide binding]; other site 94122001049 streptomycin interaction site [chemical binding]; other site 94122001050 23S rRNA interaction site [nucleotide binding]; other site 94122001051 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 94122001052 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 94122001053 elongation factor G; Reviewed; Region: PRK00007 94122001054 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 94122001055 G1 box; other site 94122001056 putative GEF interaction site [polypeptide binding]; other site 94122001057 GTP/Mg2+ binding site [chemical binding]; other site 94122001058 Switch I region; other site 94122001059 G2 box; other site 94122001060 G3 box; other site 94122001061 Switch II region; other site 94122001062 G4 box; other site 94122001063 G5 box; other site 94122001064 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 94122001065 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 94122001066 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 94122001067 elongation factor Tu; Reviewed; Region: PRK00049 94122001068 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 94122001069 G1 box; other site 94122001070 GEF interaction site [polypeptide binding]; other site 94122001071 GTP/Mg2+ binding site [chemical binding]; other site 94122001072 Switch I region; other site 94122001073 G2 box; other site 94122001074 G3 box; other site 94122001075 Switch II region; other site 94122001076 G4 box; other site 94122001077 G5 box; other site 94122001078 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 94122001079 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 94122001080 Antibiotic Binding Site [chemical binding]; other site 94122001081 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 94122001082 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 94122001083 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 94122001084 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 94122001085 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 94122001086 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 94122001087 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 94122001088 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 94122001089 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 94122001090 putative translocon binding site; other site 94122001091 protein-rRNA interface [nucleotide binding]; other site 94122001092 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 94122001093 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 94122001094 G-X-X-G motif; other site 94122001095 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 94122001096 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 94122001097 23S rRNA interface [nucleotide binding]; other site 94122001098 5S rRNA interface [nucleotide binding]; other site 94122001099 putative antibiotic binding site [chemical binding]; other site 94122001100 L25 interface [polypeptide binding]; other site 94122001101 L27 interface [polypeptide binding]; other site 94122001102 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 94122001103 23S rRNA interface [nucleotide binding]; other site 94122001104 putative translocon interaction site; other site 94122001105 signal recognition particle (SRP54) interaction site; other site 94122001106 L23 interface [polypeptide binding]; other site 94122001107 trigger factor interaction site; other site 94122001108 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 94122001109 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 94122001110 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 94122001111 KOW motif; Region: KOW; cl00354 94122001112 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 94122001113 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 94122001114 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 94122001115 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 94122001116 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 94122001117 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 94122001118 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 94122001119 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 94122001120 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 94122001121 5S rRNA interface [nucleotide binding]; other site 94122001122 L5 interface [polypeptide binding]; other site 94122001123 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 94122001124 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 94122001125 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 94122001126 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 94122001127 23S rRNA binding site [nucleotide binding]; other site 94122001128 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 94122001129 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 94122001130 SecY translocase; Region: SecY; pfam00344 94122001131 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 94122001132 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 94122001133 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 94122001134 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 94122001135 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 94122001136 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 94122001137 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 94122001138 RNA binding surface [nucleotide binding]; other site 94122001139 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 94122001140 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 94122001141 alphaNTD homodimer interface [polypeptide binding]; other site 94122001142 alphaNTD - beta interaction site [polypeptide binding]; other site 94122001143 alphaNTD - beta' interaction site [polypeptide binding]; other site 94122001144 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 94122001145 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 94122001146 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 94122001147 CcmE; Region: CcmE; cl00994 94122001148 Heme exporter protein D (CcmD); Region: CcmD; cl11475 94122001149 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 94122001150 CcmB protein; Region: CcmB; cl01016 94122001151 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 94122001152 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 94122001153 Walker A/P-loop; other site 94122001154 ATP binding site [chemical binding]; other site 94122001155 Q-loop/lid; other site 94122001156 ABC transporter signature motif; other site 94122001157 Walker B; other site 94122001158 D-loop; other site 94122001159 H-loop/switch region; other site 94122001160 Cytochrome c; Region: Cytochrom_C; cl11414 94122001161 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 94122001162 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 94122001163 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 94122001164 binding surface 94122001165 TPR motif; other site 94122001166 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 94122001167 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 94122001168 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 94122001169 catalytic residues [active] 94122001170 central insert; other site 94122001171 Cytochrome C biogenesis protein; Region: CcmH; cl01179 94122001172 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 94122001173 catalytic residues [active] 94122001174 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 94122001175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122001176 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 94122001177 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 94122001178 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 94122001179 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 94122001180 active site 94122001181 phosphorylation site [posttranslational modification] 94122001182 intermolecular recognition site; other site 94122001183 dimerization interface [polypeptide binding]; other site 94122001184 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 94122001185 DNA binding site [nucleotide binding] 94122001186 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 94122001187 Dihaem cytochrome c; Region: DHC; pfam09626 94122001188 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 94122001189 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 94122001190 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 94122001191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122001192 Helix-turn-helix domains; Region: HTH; cl00088 94122001193 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 94122001194 putative effector binding pocket; other site 94122001195 putative dimerization interface [polypeptide binding]; other site 94122001196 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 94122001197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001198 NAD(P) binding site [chemical binding]; other site 94122001199 active site 94122001200 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 94122001201 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 94122001202 NAD(P) binding site [chemical binding]; other site 94122001203 catalytic residues [active] 94122001204 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 94122001205 GAF domain; Region: GAF; cl15785 94122001206 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 94122001207 Walker A motif; other site 94122001208 ATP binding site [chemical binding]; other site 94122001209 Walker B motif; other site 94122001210 arginine finger; other site 94122001211 Helix-turn-helix domains; Region: HTH; cl00088 94122001212 two-component sensor protein; Provisional; Region: cpxA; PRK09470 94122001213 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 94122001214 dimerization interface [polypeptide binding]; other site 94122001215 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 94122001216 dimer interface [polypeptide binding]; other site 94122001217 phosphorylation site [posttranslational modification] 94122001218 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 94122001219 ATP binding site [chemical binding]; other site 94122001220 Mg2+ binding site [ion binding]; other site 94122001221 G-X-G motif; other site 94122001222 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 94122001223 active site 94122001224 phosphorylation site [posttranslational modification] 94122001225 intermolecular recognition site; other site 94122001226 dimerization interface [polypeptide binding]; other site 94122001227 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 94122001228 DNA binding site [nucleotide binding] 94122001229 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 94122001230 dimer interface [polypeptide binding]; other site 94122001231 Cation efflux family; Region: Cation_efflux; cl00316 94122001232 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 94122001233 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 94122001234 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 94122001235 active site 94122001236 phosphorylation site [posttranslational modification] 94122001237 intermolecular recognition site; other site 94122001238 dimerization interface [polypeptide binding]; other site 94122001239 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 94122001240 Walker A motif; other site 94122001241 ATP binding site [chemical binding]; other site 94122001242 Walker B motif; other site 94122001243 arginine finger; other site 94122001244 Helix-turn-helix domains; Region: HTH; cl00088 94122001245 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 94122001246 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 94122001247 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 94122001248 dimer interface [polypeptide binding]; other site 94122001249 phosphorylation site [posttranslational modification] 94122001250 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 94122001251 ATP binding site [chemical binding]; other site 94122001252 Mg2+ binding site [ion binding]; other site 94122001253 G-X-G motif; other site 94122001254 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 94122001255 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 94122001256 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 94122001257 dimer interface [polypeptide binding]; other site 94122001258 active site 94122001259 metal binding site [ion binding]; metal-binding site 94122001260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122001261 Helix-turn-helix domains; Region: HTH; cl00088 94122001262 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 94122001263 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122001264 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122001265 dimer interface [polypeptide binding]; other site 94122001266 putative CheW interface [polypeptide binding]; other site 94122001267 DinB superfamily; Region: DinB_2; pfam12867 94122001268 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 94122001269 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 94122001270 S-adenosylmethionine binding site [chemical binding]; other site 94122001271 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 94122001272 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122001273 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 94122001274 substrate binding site [chemical binding]; other site 94122001275 ATP binding site [chemical binding]; other site 94122001276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001277 metal binding site [ion binding]; metal-binding site 94122001278 active site 94122001279 I-site; other site 94122001280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 94122001281 MOSC domain; Region: MOSC; pfam03473 94122001282 3-alpha domain; Region: 3-alpha; pfam03475 94122001283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 94122001284 Cache domain; Region: Cache_1; pfam02743 94122001285 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 94122001286 dimerization interface [polypeptide binding]; other site 94122001287 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122001288 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122001289 dimer interface [polypeptide binding]; other site 94122001290 putative CheW interface [polypeptide binding]; other site 94122001291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001292 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 94122001293 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 94122001294 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 94122001295 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 94122001296 FeS/SAM binding site; other site 94122001297 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 94122001298 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 94122001299 trimer interface [polypeptide binding]; other site 94122001300 dimer interface [polypeptide binding]; other site 94122001301 putative active site [active] 94122001302 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 94122001303 MoaE interaction surface [polypeptide binding]; other site 94122001304 MoeB interaction surface [polypeptide binding]; other site 94122001305 thiocarboxylated glycine; other site 94122001306 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 94122001307 MoaE homodimer interface [polypeptide binding]; other site 94122001308 MoaD interaction [polypeptide binding]; other site 94122001309 active site residues [active] 94122001310 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 94122001311 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 94122001312 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 94122001313 dimer interface [polypeptide binding]; other site 94122001314 conserved gate region; other site 94122001315 putative PBP binding loops; other site 94122001316 ABC-ATPase subunit interface; other site 94122001317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 94122001318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122001319 Walker A/P-loop; other site 94122001320 ATP binding site [chemical binding]; other site 94122001321 Q-loop/lid; other site 94122001322 ABC transporter signature motif; other site 94122001323 Walker B; other site 94122001324 D-loop; other site 94122001325 H-loop/switch region; other site 94122001326 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 94122001327 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122001328 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 94122001329 active site 94122001330 phosphorylation site [posttranslational modification] 94122001331 intermolecular recognition site; other site 94122001332 dimerization interface [polypeptide binding]; other site 94122001333 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 94122001334 DNA binding site [nucleotide binding] 94122001335 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122001336 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 94122001337 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 94122001338 dimer interface [polypeptide binding]; other site 94122001339 phosphorylation site [posttranslational modification] 94122001340 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 94122001341 ATP binding site [chemical binding]; other site 94122001342 Mg2+ binding site [ion binding]; other site 94122001343 G-X-G motif; other site 94122001344 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 94122001345 active site 94122001346 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 94122001347 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122001348 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 94122001349 N-terminal plug; other site 94122001350 ligand-binding site [chemical binding]; other site 94122001351 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 94122001352 Peptidase family M23; Region: Peptidase_M23; pfam01551 94122001353 NlpC/P60 family; Region: NLPC_P60; cl11438 94122001354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122001355 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122001356 Helix-turn-helix domains; Region: HTH; cl00088 94122001357 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 94122001358 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 94122001359 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 94122001360 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 94122001361 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 94122001362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122001363 catalytic residue [active] 94122001364 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122001365 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122001366 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 94122001367 N-terminal plug; other site 94122001368 ligand-binding site [chemical binding]; other site 94122001369 glutamine synthetase; Provisional; Region: glnA; PRK09469 94122001370 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 94122001371 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 94122001372 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 94122001373 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 94122001374 G1 box; other site 94122001375 putative GEF interaction site [polypeptide binding]; other site 94122001376 GTP/Mg2+ binding site [chemical binding]; other site 94122001377 Switch I region; other site 94122001378 G2 box; other site 94122001379 G3 box; other site 94122001380 Switch II region; other site 94122001381 G4 box; other site 94122001382 G5 box; other site 94122001383 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 94122001384 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 94122001385 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 94122001386 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122001387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122001388 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 94122001389 classical (c) SDRs; Region: SDR_c; cd05233 94122001390 NAD(P) binding site [chemical binding]; other site 94122001391 active site 94122001392 Cupin domain; Region: Cupin_2; cl09118 94122001393 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 94122001394 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 94122001395 putative NAD(P) binding site [chemical binding]; other site 94122001396 catalytic Zn binding site [ion binding]; other site 94122001397 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 94122001398 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 94122001399 dimer interface [polypeptide binding]; other site 94122001400 active site 94122001401 heme binding site [chemical binding]; other site 94122001402 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 94122001403 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 94122001404 4Fe-4S binding domain; Region: Fer4_5; pfam12801 94122001405 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 94122001406 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 94122001407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001408 metal binding site [ion binding]; metal-binding site 94122001409 active site 94122001410 I-site; other site 94122001411 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 94122001412 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 94122001413 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 94122001414 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 94122001415 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 94122001416 putative active site [active] 94122001417 dimerization interface [polypeptide binding]; other site 94122001418 putative tRNAtyr binding site [nucleotide binding]; other site 94122001419 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 94122001420 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122001421 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 94122001422 active site residue [active] 94122001423 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 94122001424 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 94122001425 non-specific DNA binding site [nucleotide binding]; other site 94122001426 salt bridge; other site 94122001427 sequence-specific DNA binding site [nucleotide binding]; other site 94122001428 Cupin domain; Region: Cupin_2; cl09118 94122001429 Benzoate membrane transport protein; Region: BenE; pfam03594 94122001430 benzoate transporter; Region: benE; TIGR00843 94122001431 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122001432 Coenzyme A binding pocket [chemical binding]; other site 94122001433 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 94122001434 trimer interface [polypeptide binding]; other site 94122001435 active site 94122001436 substrate binding site [chemical binding]; other site 94122001437 CoA binding site [chemical binding]; other site 94122001438 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 94122001439 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 94122001440 dimer interface [polypeptide binding]; other site 94122001441 active site 94122001442 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 94122001443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001444 NAD(P) binding site [chemical binding]; other site 94122001445 active site 94122001446 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 94122001447 putative active site 1 [active] 94122001448 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 94122001449 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 94122001450 dimer interface [polypeptide binding]; other site 94122001451 active site 94122001452 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 94122001453 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 94122001454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001455 Predicted exporter [General function prediction only]; Region: COG4258 94122001456 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 94122001457 active site 94122001458 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 94122001459 active sites [active] 94122001460 tetramer interface [polypeptide binding]; other site 94122001461 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 94122001462 Ligand binding site; other site 94122001463 Putative Catalytic site; other site 94122001464 DXD motif; other site 94122001465 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 94122001466 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 94122001467 putative acyl-acceptor binding pocket; other site 94122001468 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 94122001469 active site 2 [active] 94122001470 dimer interface [polypeptide binding]; other site 94122001471 active site 1 [active] 94122001472 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 94122001473 AMP-binding enzyme; Region: AMP-binding; cl15778 94122001474 Predicted membrane protein [Function unknown]; Region: COG4648 94122001475 putative transposase OrfB; Reviewed; Region: PHA02517 94122001476 Integrase core domain; Region: rve; cl01316 94122001477 Integrase core domain; Region: rve_3; cl15866 94122001478 Predicted membrane protein [Function unknown]; Region: COG4648 94122001479 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122001480 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122001481 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 94122001482 putative acyl-acceptor binding pocket; other site 94122001483 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 94122001484 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 94122001485 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 94122001486 Y-family of DNA polymerases; Region: PolY; cl12025 94122001487 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 94122001488 generic binding surface II; other site 94122001489 ssDNA binding site; other site 94122001490 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 94122001491 ATP binding site [chemical binding]; other site 94122001492 putative Mg++ binding site [ion binding]; other site 94122001493 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 94122001494 nucleotide binding region [chemical binding]; other site 94122001495 ATP-binding site [chemical binding]; other site 94122001496 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 94122001497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001498 metal binding site [ion binding]; metal-binding site 94122001499 active site 94122001500 I-site; other site 94122001501 Flagellin N-methylase; Region: FliB; cl00497 94122001502 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 94122001503 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 94122001504 substrate binding pocket [chemical binding]; other site 94122001505 membrane-bound complex binding site; other site 94122001506 hinge residues; other site 94122001507 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 94122001508 Domain of unknown function DUF21; Region: DUF21; pfam01595 94122001509 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 94122001510 Transporter associated domain; Region: CorC_HlyC; cl08393 94122001511 Helix-turn-helix domains; Region: HTH; cl00088 94122001512 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 94122001513 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 94122001514 putative dimerization interface [polypeptide binding]; other site 94122001515 ketol-acid reductoisomerase; Validated; Region: PRK05225 94122001516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001517 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 94122001518 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 94122001519 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 94122001520 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 94122001521 PYR/PP interface [polypeptide binding]; other site 94122001522 dimer interface [polypeptide binding]; other site 94122001523 TPP binding site [chemical binding]; other site 94122001524 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 94122001525 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 94122001526 TPP-binding site [chemical binding]; other site 94122001527 dimer interface [polypeptide binding]; other site 94122001528 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 94122001529 Dehydratase family; Region: ILVD_EDD; cl00340 94122001530 threonine dehydratase; Reviewed; Region: PRK09224 94122001531 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 94122001532 tetramer interface [polypeptide binding]; other site 94122001533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122001534 catalytic residue [active] 94122001535 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 94122001536 putative Ile/Val binding site [chemical binding]; other site 94122001537 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 94122001538 putative Ile/Val binding site [chemical binding]; other site 94122001539 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 94122001540 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 94122001541 homodimer interface [polypeptide binding]; other site 94122001542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122001543 catalytic residue [active] 94122001544 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; cd01610 94122001545 active site 94122001546 Inner membrane protein CreD; Region: CreD; cl01844 94122001547 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 94122001548 Membrane fusogenic activity; Region: BMFP; cl01115 94122001549 multidrug efflux protein; Reviewed; Region: PRK09579 94122001550 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122001551 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 94122001552 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 94122001553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122001554 Helix-turn-helix domains; Region: HTH; cl00088 94122001555 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 94122001556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122001557 Family description; Region: UvrD_C_2; cl15862 94122001558 GAF domain; Region: GAF_2; pfam13185 94122001559 GAF domain; Region: GAF; cl15785 94122001560 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 94122001561 GAF domain; Region: GAF; cl15785 94122001562 GAF domain; Region: GAF_2; pfam13185 94122001563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001564 metal binding site [ion binding]; metal-binding site 94122001565 active site 94122001566 I-site; other site 94122001567 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 94122001568 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 94122001569 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 94122001570 dimerization interface [polypeptide binding]; other site 94122001571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001572 metal binding site [ion binding]; metal-binding site 94122001573 active site 94122001574 I-site; other site 94122001575 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 94122001576 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 94122001577 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 94122001578 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122001579 ligand binding site [chemical binding]; other site 94122001580 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 94122001581 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 94122001582 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 94122001583 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 94122001584 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39_likeD; cd02421 94122001585 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 94122001586 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122001587 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 94122001588 Walker A/P-loop; other site 94122001589 ATP binding site [chemical binding]; other site 94122001590 Q-loop/lid; other site 94122001591 ABC transporter signature motif; other site 94122001592 Walker B; other site 94122001593 D-loop; other site 94122001594 H-loop/switch region; other site 94122001595 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001596 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001597 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001598 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001599 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001600 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001601 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001602 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 94122001603 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 94122001604 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; cd00198 94122001605 metal ion-dependent adhesion site (MIDAS); other site 94122001606 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 94122001607 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 94122001608 hemY protein; Region: hemY_coli; TIGR00540 94122001609 HemY protein N-terminus; Region: HemY_N; pfam07219 94122001610 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 94122001611 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 94122001612 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 94122001613 active site 94122001614 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 94122001615 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 94122001616 domain interfaces; other site 94122001617 active site 94122001618 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 94122001619 adenylate cyclase; Provisional; Region: cyaA; PRK09450 94122001620 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 94122001621 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 94122001622 putative iron binding site [ion binding]; other site 94122001623 diaminopimelate decarboxylase; Region: lysA; TIGR01048 94122001624 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 94122001625 active site 94122001626 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 94122001627 substrate binding site [chemical binding]; other site 94122001628 catalytic residues [active] 94122001629 dimer interface [polypeptide binding]; other site 94122001630 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 94122001631 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 94122001632 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 94122001633 GAF domain; Region: GAF; cl15785 94122001634 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 94122001635 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 94122001636 active site 94122001637 Int/Topo IB signature motif; other site 94122001638 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 94122001639 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 94122001640 motif II; other site 94122001641 HupE / UreJ protein; Region: HupE_UreJ; cl01011 94122001642 Divergent AAA domain; Region: AAA_4; pfam04326 94122001643 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 94122001644 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 94122001645 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 94122001646 Helix-turn-helix domains; Region: HTH; cl00088 94122001647 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 94122001648 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 94122001649 FMN binding site [chemical binding]; other site 94122001650 active site 94122001651 catalytic residues [active] 94122001652 substrate binding site [chemical binding]; other site 94122001653 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 94122001654 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 94122001655 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 94122001656 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 94122001657 Iron-sulfur protein interface; other site 94122001658 proximal heme binding site [chemical binding]; other site 94122001659 distal heme binding site [chemical binding]; other site 94122001660 dimer interface [polypeptide binding]; other site 94122001661 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 94122001662 Iron-sulfur protein interface; other site 94122001663 proximal heme binding site [chemical binding]; other site 94122001664 distal heme binding site [chemical binding]; other site 94122001665 dimer interface [polypeptide binding]; other site 94122001666 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 94122001667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001668 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 94122001669 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 94122001670 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 94122001671 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 94122001672 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 94122001673 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 94122001674 putative NAD(P) binding site [chemical binding]; other site 94122001675 dimer interface [polypeptide binding]; other site 94122001676 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122001677 Helix-turn-helix domains; Region: HTH; cl00088 94122001678 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 94122001679 putative effector binding pocket; other site 94122001680 dimerization interface [polypeptide binding]; other site 94122001681 transcription termination factor Rho; Provisional; Region: rho; PRK09376 94122001682 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 94122001683 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 94122001684 RNA binding site [nucleotide binding]; other site 94122001685 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 94122001686 multimer interface [polypeptide binding]; other site 94122001687 Walker A motif; other site 94122001688 ATP binding site [chemical binding]; other site 94122001689 Walker B motif; other site 94122001690 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 94122001691 catalytic residues [active] 94122001692 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 94122001693 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 94122001694 ATP binding site [chemical binding]; other site 94122001695 Mg++ binding site [ion binding]; other site 94122001696 motif III; other site 94122001697 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 94122001698 nucleotide binding region [chemical binding]; other site 94122001699 ATP-binding site [chemical binding]; other site 94122001700 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 94122001701 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 94122001702 catalytic residues [active] 94122001703 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 94122001704 active site 94122001705 8-oxo-dGMP binding site [chemical binding]; other site 94122001706 nudix motif; other site 94122001707 metal binding site [ion binding]; metal-binding site 94122001708 Domain of unknown function (DUF329); Region: DUF329; cl01144 94122001709 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 94122001710 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 94122001711 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 94122001712 CoA-binding site [chemical binding]; other site 94122001713 ATP-binding [chemical binding]; other site 94122001714 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 94122001715 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 94122001716 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 94122001717 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122001718 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122001719 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 94122001720 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 94122001721 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 94122001722 Walker A motif; other site 94122001723 ATP binding site [chemical binding]; other site 94122001724 Walker B motif; other site 94122001725 O-Antigen ligase; Region: Wzy_C; cl04850 94122001726 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 94122001727 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 94122001728 dimerization interface [polypeptide binding]; other site 94122001729 active site 94122001730 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 94122001731 amidase catalytic site [active] 94122001732 Zn binding residues [ion binding]; other site 94122001733 substrate binding site [chemical binding]; other site 94122001734 CobD/Cbib protein; Region: CobD_Cbib; cl00561 94122001735 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 94122001736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122001737 DNA-binding site [nucleotide binding]; DNA binding site 94122001738 FCD domain; Region: FCD; cl11656 94122001739 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 94122001740 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 94122001741 dimer interface [polypeptide binding]; other site 94122001742 TPP-binding site [chemical binding]; other site 94122001743 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 94122001744 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 94122001745 E3 interaction surface; other site 94122001746 lipoyl attachment site [posttranslational modification]; other site 94122001747 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 94122001748 E3 interaction surface; other site 94122001749 lipoyl attachment site [posttranslational modification]; other site 94122001750 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 94122001751 E3 interaction surface; other site 94122001752 lipoyl attachment site [posttranslational modification]; other site 94122001753 e3 binding domain; Region: E3_binding; pfam02817 94122001754 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 94122001755 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 94122001756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122001757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122001758 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 94122001759 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 94122001760 PAS domain S-box; Region: sensory_box; TIGR00229 94122001761 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 94122001762 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 94122001763 PAS domain; Region: PAS_9; pfam13426 94122001764 putative active site [active] 94122001765 heme pocket [chemical binding]; other site 94122001766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001767 metal binding site [ion binding]; metal-binding site 94122001768 active site 94122001769 I-site; other site 94122001770 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 94122001771 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 94122001772 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 94122001773 active site 94122001774 nucleophile elbow; other site 94122001775 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122001776 Surface antigen; Region: Bac_surface_Ag; cl03097 94122001777 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 94122001778 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 94122001779 active site 94122001780 Zn binding site [ion binding]; other site 94122001781 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 94122001782 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122001783 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 94122001784 motif II; other site 94122001785 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 94122001786 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 94122001787 substrate binding site [chemical binding]; other site 94122001788 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 94122001789 substrate binding site [chemical binding]; other site 94122001790 ligand binding site [chemical binding]; other site 94122001791 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 94122001792 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 94122001793 substrate binding site [chemical binding]; other site 94122001794 active site 94122001795 sensory histidine kinase AtoS; Provisional; Region: PRK11360 94122001796 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 94122001797 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001798 metal binding site [ion binding]; metal-binding site 94122001799 active site 94122001800 I-site; other site 94122001801 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 94122001802 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 94122001803 short chain dehydrogenase; Provisional; Region: PRK06181 94122001804 NADP binding site [chemical binding]; other site 94122001805 homodimer interface [polypeptide binding]; other site 94122001806 substrate binding site [chemical binding]; other site 94122001807 active site 94122001808 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 94122001809 Peptidase M60-like family; Region: M60-like; pfam13402 94122001810 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 94122001811 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 94122001812 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122001813 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 94122001814 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 94122001815 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 94122001816 purine monophosphate binding site [chemical binding]; other site 94122001817 dimer interface [polypeptide binding]; other site 94122001818 putative catalytic residues [active] 94122001819 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 94122001820 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 94122001821 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 94122001822 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 94122001823 DNA binding residues [nucleotide binding] 94122001824 dimer interface [polypeptide binding]; other site 94122001825 metal binding site [ion binding]; metal-binding site 94122001826 Predicted permease; Region: DUF318; pfam03773 94122001827 Predicted permease; Region: DUF318; pfam03773 94122001828 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 94122001829 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 94122001830 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122001831 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122001832 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 94122001833 putative MFS family transporter protein; Provisional; Region: PRK03633 94122001834 putative substrate translocation pore; other site 94122001835 GAF domain; Region: GAF_2; pfam13185 94122001836 GAF domain; Region: GAF; cl15785 94122001837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001838 metal binding site [ion binding]; metal-binding site 94122001839 active site 94122001840 I-site; other site 94122001841 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 94122001842 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 94122001843 transmembrane helices; other site 94122001844 thioredoxin 2; Provisional; Region: PRK10996 94122001845 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 94122001846 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 94122001847 catalytic residues [active] 94122001848 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122001849 PAS fold; Region: PAS_3; pfam08447 94122001850 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 94122001851 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122001852 metal binding site [ion binding]; metal-binding site 94122001853 active site 94122001854 I-site; other site 94122001855 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 94122001856 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122001857 DctM-like transporters; Region: DctM; pfam06808 94122001858 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 94122001859 NMT1-like family; Region: NMT1_2; cl15260 94122001860 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 94122001861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122001862 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 94122001863 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_21; cd04680 94122001864 nudix motif; other site 94122001865 Helix-turn-helix domains; Region: HTH; cl00088 94122001866 DNA binding site [nucleotide binding] 94122001867 Response regulator receiver domain; Region: Response_reg; pfam00072 94122001868 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 94122001869 active site 94122001870 phosphorylation site [posttranslational modification] 94122001871 intermolecular recognition site; other site 94122001872 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 94122001873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122001874 Family description; Region: UvrD_C_2; cl15862 94122001875 UbiA prenyltransferase family; Region: UbiA; cl00337 94122001876 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 94122001877 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122001878 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122001879 Nitronate monooxygenase; Region: NMO; pfam03060 94122001880 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 94122001881 FMN binding site [chemical binding]; other site 94122001882 substrate binding site [chemical binding]; other site 94122001883 putative catalytic residue [active] 94122001884 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 94122001885 catalytic residues [active] 94122001886 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 94122001887 catalytic residues [active] 94122001888 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 94122001889 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 94122001890 TfoX N-terminal domain; Region: TfoX_N; cl01167 94122001891 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 94122001892 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 94122001893 active site 94122001894 phosphorylation site [posttranslational modification] 94122001895 intermolecular recognition site; other site 94122001896 dimerization interface [polypeptide binding]; other site 94122001897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122001898 Zn2+ binding site [ion binding]; other site 94122001899 Mg2+ binding site [ion binding]; other site 94122001900 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 94122001901 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 94122001902 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 94122001903 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122001904 substrate binding pocket [chemical binding]; other site 94122001905 membrane-bound complex binding site; other site 94122001906 hinge residues; other site 94122001907 PAS domain S-box; Region: sensory_box; TIGR00229 94122001908 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 94122001909 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 94122001910 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 94122001911 dimer interface [polypeptide binding]; other site 94122001912 phosphorylation site [posttranslational modification] 94122001913 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 94122001914 ATP binding site [chemical binding]; other site 94122001915 Mg2+ binding site [ion binding]; other site 94122001916 G-X-G motif; other site 94122001917 Response regulator receiver domain; Region: Response_reg; pfam00072 94122001918 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 94122001919 active site 94122001920 phosphorylation site [posttranslational modification] 94122001921 intermolecular recognition site; other site 94122001922 dimerization interface [polypeptide binding]; other site 94122001923 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 94122001924 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 94122001925 Response regulator receiver domain; Region: Response_reg; pfam00072 94122001926 active site 94122001927 phosphorylation site [posttranslational modification] 94122001928 intermolecular recognition site; other site 94122001929 dimerization interface [polypeptide binding]; other site 94122001930 Response regulator receiver domain; Region: Response_reg; pfam00072 94122001931 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 94122001932 active site 94122001933 phosphorylation site [posttranslational modification] 94122001934 intermolecular recognition site; other site 94122001935 dimerization interface [polypeptide binding]; other site 94122001936 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 94122001937 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 94122001938 ATP binding site [chemical binding]; other site 94122001939 Mg2+ binding site [ion binding]; other site 94122001940 G-X-G motif; other site 94122001941 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 94122001942 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122001943 structural tetrad; other site 94122001944 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 94122001945 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 94122001946 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 94122001947 metal binding site [ion binding]; metal-binding site 94122001948 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 94122001949 catalytic residues [active] 94122001950 Cytochrome C biogenesis protein; Region: CcmH; cl01179 94122001951 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 94122001952 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 94122001953 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 94122001954 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 94122001955 active site residue [active] 94122001956 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 94122001957 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 94122001958 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122001959 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 94122001960 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 94122001961 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 94122001962 Polysulphide reductase, NrfD; Region: NrfD; cl01295 94122001963 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 94122001964 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 94122001965 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 94122001966 Walker A/P-loop; other site 94122001967 ATP binding site [chemical binding]; other site 94122001968 Q-loop/lid; other site 94122001969 ABC transporter signature motif; other site 94122001970 Walker B; other site 94122001971 D-loop; other site 94122001972 H-loop/switch region; other site 94122001973 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122001974 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 94122001975 DNA binding site [nucleotide binding] 94122001976 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 94122001977 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 94122001978 active site 94122001979 Zn binding site [ion binding]; other site 94122001980 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 94122001981 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 94122001982 active site 94122001983 catalytic triad [active] 94122001984 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 94122001985 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122001986 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122001987 catalytic residues [active] 94122001988 Flavin Reductases; Region: FlaRed; cl00801 94122001989 FMN reductase; Validated; Region: fre; PRK08051 94122001990 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 94122001991 FAD binding pocket [chemical binding]; other site 94122001992 FAD binding motif [chemical binding]; other site 94122001993 phosphate binding motif [ion binding]; other site 94122001994 beta-alpha-beta structure motif; other site 94122001995 NAD binding pocket [chemical binding]; other site 94122001996 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 94122001997 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 94122001998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122001999 putative substrate translocation pore; other site 94122002000 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 94122002001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122002002 NAD(P) binding site [chemical binding]; other site 94122002003 active site 94122002004 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 94122002005 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 94122002006 carboxyltransferase (CT) interaction site; other site 94122002007 biotinylation site [posttranslational modification]; other site 94122002008 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 94122002009 active site 94122002010 trimer interface [polypeptide binding]; other site 94122002011 dimer interface [polypeptide binding]; other site 94122002012 RF-1 domain; Region: RF-1; cl02875 94122002013 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 94122002014 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 94122002015 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 94122002016 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 94122002017 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122002018 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 94122002019 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 94122002020 Protein export membrane protein; Region: SecD_SecF; cl14618 94122002021 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 94122002022 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 94122002023 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 94122002024 LysR family transcriptional regulator; Provisional; Region: PRK14997 94122002025 Helix-turn-helix domains; Region: HTH; cl00088 94122002026 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 94122002027 putative effector binding pocket; other site 94122002028 dimerization interface [polypeptide binding]; other site 94122002029 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122002030 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 94122002031 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 94122002032 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 94122002033 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 94122002034 putative substrate translocation pore; other site 94122002035 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122002036 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 94122002037 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122002038 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 94122002039 Walker A motif; other site 94122002040 ATP binding site [chemical binding]; other site 94122002041 Walker B motif; other site 94122002042 arginine finger; other site 94122002043 Helix-turn-helix domains; Region: HTH; cl00088 94122002044 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 94122002045 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 94122002046 Helix-turn-helix domains; Region: HTH; cl00088 94122002047 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 94122002048 dimerization interface [polypeptide binding]; other site 94122002049 LysE type translocator; Region: LysE; cl00565 94122002050 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 94122002051 dimerization interface [polypeptide binding]; other site 94122002052 putative DNA binding site [nucleotide binding]; other site 94122002053 putative Zn2+ binding site [ion binding]; other site 94122002054 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 94122002055 Membrane transport protein; Region: Mem_trans; cl09117 94122002056 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 94122002057 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122002058 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122002059 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122002060 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 94122002061 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 94122002062 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122002063 Beta-Casp domain; Region: Beta-Casp; cl12567 94122002064 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 94122002065 conserved hypothetical protein; Region: QEGLA; TIGR02421 94122002066 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 94122002067 CHASE domain; Region: CHASE; cl01369 94122002068 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 94122002069 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 94122002070 putative active site [active] 94122002071 heme pocket [chemical binding]; other site 94122002072 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 94122002073 dimer interface [polypeptide binding]; other site 94122002074 phosphorylation site [posttranslational modification] 94122002075 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 94122002076 ATP binding site [chemical binding]; other site 94122002077 Mg2+ binding site [ion binding]; other site 94122002078 G-X-G motif; other site 94122002079 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 94122002080 active site 94122002081 phosphorylation site [posttranslational modification] 94122002082 intermolecular recognition site; other site 94122002083 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122002084 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 94122002085 active site 94122002086 phosphorylation site [posttranslational modification] 94122002087 intermolecular recognition site; other site 94122002088 dimerization interface [polypeptide binding]; other site 94122002089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002090 metal binding site [ion binding]; metal-binding site 94122002091 active site 94122002092 I-site; other site 94122002093 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 94122002094 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 94122002095 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122002096 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 94122002097 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 94122002098 IHF dimer interface [polypeptide binding]; other site 94122002099 IHF - DNA interface [nucleotide binding]; other site 94122002100 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 94122002101 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 94122002102 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 94122002103 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 94122002104 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002105 metal binding site [ion binding]; metal-binding site 94122002106 active site 94122002107 I-site; other site 94122002108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 94122002109 TraB family; Region: TraB; cl12050 94122002110 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 94122002111 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 94122002112 S-adenosylmethionine binding site [chemical binding]; other site 94122002113 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 94122002114 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 94122002115 active site 2 [active] 94122002116 active site 1 [active] 94122002117 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 94122002118 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 94122002119 active site 94122002120 catalytic tetrad [active] 94122002121 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 94122002122 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 94122002123 Potassium binding sites [ion binding]; other site 94122002124 Cesium cation binding sites [ion binding]; other site 94122002125 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 94122002126 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122002127 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 94122002128 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 94122002129 putative ligand binding site [chemical binding]; other site 94122002130 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 94122002131 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 94122002132 putative acyl-acceptor binding pocket; other site 94122002133 RNase E inhibitor protein; Provisional; Region: PRK11191 94122002134 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 94122002135 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 94122002136 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002137 metal binding site [ion binding]; metal-binding site 94122002138 active site 94122002139 I-site; other site 94122002140 Response regulator receiver domain; Region: Response_reg; pfam00072 94122002141 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 94122002142 active site 94122002143 phosphorylation site [posttranslational modification] 94122002144 intermolecular recognition site; other site 94122002145 dimerization interface [polypeptide binding]; other site 94122002146 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 94122002147 enoyl-CoA hydratase; Provisional; Region: PRK07509 94122002148 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 94122002149 substrate binding site [chemical binding]; other site 94122002150 oxyanion hole (OAH) forming residues; other site 94122002151 trimer interface [polypeptide binding]; other site 94122002152 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 94122002153 ATP-dependent helicase HepA; Validated; Region: PRK04914 94122002154 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 94122002155 ATP binding site [chemical binding]; other site 94122002156 putative Mg++ binding site [ion binding]; other site 94122002157 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 94122002158 nucleotide binding region [chemical binding]; other site 94122002159 ATP-binding site [chemical binding]; other site 94122002160 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 94122002161 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 94122002162 putative active site [active] 94122002163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002164 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 94122002165 Cache domain; Region: Cache_1; pfam02743 94122002166 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 94122002167 PAS fold; Region: PAS_4; pfam08448 94122002168 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 94122002169 putative active site [active] 94122002170 heme pocket [chemical binding]; other site 94122002171 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 94122002172 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 94122002173 putative active site [active] 94122002174 heme pocket [chemical binding]; other site 94122002175 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 94122002176 dimer interface [polypeptide binding]; other site 94122002177 phosphorylation site [posttranslational modification] 94122002178 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 94122002179 ATP binding site [chemical binding]; other site 94122002180 Mg2+ binding site [ion binding]; other site 94122002181 G-X-G motif; other site 94122002182 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 94122002183 Response regulator receiver domain; Region: Response_reg; pfam00072 94122002184 active site 94122002185 phosphorylation site [posttranslational modification] 94122002186 intermolecular recognition site; other site 94122002187 dimerization interface [polypeptide binding]; other site 94122002188 Response regulator receiver domain; Region: Response_reg; pfam00072 94122002189 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 94122002190 active site 94122002191 phosphorylation site [posttranslational modification] 94122002192 intermolecular recognition site; other site 94122002193 dimerization interface [polypeptide binding]; other site 94122002194 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 94122002195 active site 94122002196 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 94122002197 Catalytic domain of Protein Kinases; Region: PKc; cd00180 94122002198 active site 94122002199 ATP binding site [chemical binding]; other site 94122002200 substrate binding site [chemical binding]; other site 94122002201 activation loop (A-loop); other site 94122002202 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 94122002203 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 94122002204 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 94122002205 PAS fold; Region: PAS_3; pfam08447 94122002206 putative active site [active] 94122002207 heme pocket [chemical binding]; other site 94122002208 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122002209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122002210 dimer interface [polypeptide binding]; other site 94122002211 putative CheW interface [polypeptide binding]; other site 94122002212 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 94122002213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122002214 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 94122002215 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 94122002216 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 94122002217 active site 94122002218 catalytic site [active] 94122002219 metal binding site [ion binding]; metal-binding site 94122002220 putative mechanosensitive channel protein; Provisional; Region: PRK10929 94122002221 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 94122002222 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122002223 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 94122002224 EamA-like transporter family; Region: EamA; cl01037 94122002225 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 94122002226 GTPase RsgA; Reviewed; Region: PRK12288 94122002227 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 94122002228 RNA binding site [nucleotide binding]; other site 94122002229 homodimer interface [polypeptide binding]; other site 94122002230 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 94122002231 GTPase/Zn-binding domain interface [polypeptide binding]; other site 94122002232 GTP/Mg2+ binding site [chemical binding]; other site 94122002233 G4 box; other site 94122002234 G5 box; other site 94122002235 G1 box; other site 94122002236 Switch I region; other site 94122002237 G2 box; other site 94122002238 G3 box; other site 94122002239 Switch II region; other site 94122002240 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 94122002241 catalytic site [active] 94122002242 putative active site [active] 94122002243 putative substrate binding site [chemical binding]; other site 94122002244 dimer interface [polypeptide binding]; other site 94122002245 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 94122002246 dinuclear metal binding motif [ion binding]; other site 94122002247 putative carbohydrate kinase; Provisional; Region: PRK10565 94122002248 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 94122002249 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 94122002250 putative substrate binding site [chemical binding]; other site 94122002251 putative ATP binding site [chemical binding]; other site 94122002252 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 94122002253 AMIN domain; Region: AMIN; pfam11741 94122002254 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 94122002255 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 94122002256 active site 94122002257 metal binding site [ion binding]; metal-binding site 94122002258 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122002259 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 94122002260 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 94122002261 ATP binding site [chemical binding]; other site 94122002262 Mg2+ binding site [ion binding]; other site 94122002263 G-X-G motif; other site 94122002264 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 94122002265 ATP binding site [chemical binding]; other site 94122002266 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 94122002267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002268 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 94122002269 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 94122002270 Sm1 motif; other site 94122002271 intra - hexamer interaction site; other site 94122002272 inter - hexamer interaction site [polypeptide binding]; other site 94122002273 nucleotide binding pocket [chemical binding]; other site 94122002274 Sm2 motif; other site 94122002275 GTPase HflX; Provisional; Region: PRK11058 94122002276 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 94122002277 HflX GTPase family; Region: HflX; cd01878 94122002278 G1 box; other site 94122002279 GTP/Mg2+ binding site [chemical binding]; other site 94122002280 Switch I region; other site 94122002281 G2 box; other site 94122002282 G3 box; other site 94122002283 Switch II region; other site 94122002284 G4 box; other site 94122002285 G5 box; other site 94122002286 FtsH protease regulator HflK; Provisional; Region: PRK10930 94122002287 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 94122002288 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 94122002289 FtsH protease regulator HflC; Provisional; Region: PRK11029 94122002290 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 94122002291 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 94122002292 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 94122002293 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 94122002294 [2Fe-2S] cluster binding site [ion binding]; other site 94122002295 cytochrome b; Provisional; Region: CYTB; MTH00145 94122002296 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 94122002297 Qi binding site; other site 94122002298 intrachain domain interface; other site 94122002299 interchain domain interface [polypeptide binding]; other site 94122002300 heme bH binding site [chemical binding]; other site 94122002301 heme bL binding site [chemical binding]; other site 94122002302 Qo binding site; other site 94122002303 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; cd00290 94122002304 interchain domain interface [polypeptide binding]; other site 94122002305 intrachain domain interface; other site 94122002306 Qi binding site; other site 94122002307 Qo binding site; other site 94122002308 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 94122002309 stringent starvation protein A; Provisional; Region: sspA; PRK09481 94122002310 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 94122002311 C-terminal domain interface [polypeptide binding]; other site 94122002312 putative GSH binding site (G-site) [chemical binding]; other site 94122002313 dimer interface [polypeptide binding]; other site 94122002314 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 94122002315 dimer interface [polypeptide binding]; other site 94122002316 N-terminal domain interface [polypeptide binding]; other site 94122002317 Stringent starvation protein B; Region: SspB; cl01120 94122002318 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 94122002319 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 94122002320 glutamine binding [chemical binding]; other site 94122002321 catalytic triad [active] 94122002322 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122002323 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 94122002324 HDOD domain; Region: HDOD; pfam08668 94122002325 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 94122002326 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 94122002327 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 94122002328 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 94122002329 inhibitor-cofactor binding pocket; inhibition site 94122002330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122002331 catalytic residue [active] 94122002332 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 94122002333 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 94122002334 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 94122002335 NAD(P) binding site [chemical binding]; other site 94122002336 catalytic residues [active] 94122002337 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 94122002338 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122002339 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 94122002340 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 94122002341 dimer interface [polypeptide binding]; other site 94122002342 phosphorylation site [posttranslational modification] 94122002343 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 94122002344 ATP binding site [chemical binding]; other site 94122002345 Mg2+ binding site [ion binding]; other site 94122002346 G-X-G motif; other site 94122002347 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122002348 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 94122002349 active site 94122002350 phosphorylation site [posttranslational modification] 94122002351 intermolecular recognition site; other site 94122002352 dimerization interface [polypeptide binding]; other site 94122002353 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 94122002354 DNA binding site [nucleotide binding] 94122002355 Predicted membrane protein [Function unknown]; Region: COG3212 94122002356 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 94122002357 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 94122002358 ligand binding site [chemical binding]; other site 94122002359 flexible hinge region; other site 94122002360 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 94122002361 putative switch regulator; other site 94122002362 non-specific DNA interactions [nucleotide binding]; other site 94122002363 DNA binding site [nucleotide binding] 94122002364 sequence specific DNA binding site [nucleotide binding]; other site 94122002365 putative cAMP binding site [chemical binding]; other site 94122002366 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 94122002367 Sel1 repeat; Region: Sel1; cl02723 94122002368 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 94122002369 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 94122002370 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 94122002371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002372 metal binding site [ion binding]; metal-binding site 94122002373 active site 94122002374 I-site; other site 94122002375 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 94122002376 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 94122002377 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 94122002378 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 94122002379 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 94122002380 ATP binding site [chemical binding]; other site 94122002381 putative Mg++ binding site [ion binding]; other site 94122002382 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 94122002383 nucleotide binding region [chemical binding]; other site 94122002384 Helicase associated domain (HA2); Region: HA2; cl04503 94122002385 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 94122002386 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 94122002387 Transglycosylase; Region: Transgly; cl07896 94122002388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122002389 PPIC-type PPIASE domain; Region: Rotamase; cl08278 94122002390 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 94122002391 TSC-22/dip/bun family; Region: TSC22; cl01853 94122002392 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 94122002393 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 94122002394 PAS domain; Region: PAS_9; pfam13426 94122002395 putative active site [active] 94122002396 heme pocket [chemical binding]; other site 94122002397 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 94122002398 PAS domain; Region: PAS_9; pfam13426 94122002399 putative active site [active] 94122002400 heme pocket [chemical binding]; other site 94122002401 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122002402 dimer interface [polypeptide binding]; other site 94122002403 putative CheW interface [polypeptide binding]; other site 94122002404 tetrathionate reductase subunit A; Provisional; Region: PRK14991 94122002405 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 94122002406 molybdopterin cofactor binding site; other site 94122002407 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 94122002408 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 94122002409 putative molybdopterin cofactor binding site; other site 94122002410 Polysulphide reductase, NrfD; Region: NrfD; cl01295 94122002411 tetrathionate reductase subunit B; Provisional; Region: PRK14993 94122002412 4Fe-4S binding domain; Region: Fer4; cl02805 94122002413 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 94122002414 NMT1-like family; Region: NMT1_2; cl15260 94122002415 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122002416 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 94122002417 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 94122002418 dimer interface [polypeptide binding]; other site 94122002419 phosphorylation site [posttranslational modification] 94122002420 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 94122002421 ATP binding site [chemical binding]; other site 94122002422 G-X-G motif; other site 94122002423 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 94122002424 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 94122002425 active site 94122002426 phosphorylation site [posttranslational modification] 94122002427 intermolecular recognition site; other site 94122002428 dimerization interface [polypeptide binding]; other site 94122002429 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 94122002430 DNA binding residues [nucleotide binding] 94122002431 dimerization interface [polypeptide binding]; other site 94122002432 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 94122002433 DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]; Region: COG1697 94122002434 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 94122002435 active site 94122002436 metal binding site [ion binding]; metal-binding site 94122002437 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 94122002438 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122002439 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 94122002440 Protein of unknown function DUF262; Region: DUF262; cl14890 94122002441 Restriction endonuclease; Region: Mrr_cat; cl00516 94122002442 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 94122002443 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 94122002444 AMP binding site [chemical binding]; other site 94122002445 metal binding site [ion binding]; metal-binding site 94122002446 active site 94122002447 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 94122002448 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 94122002449 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 94122002450 two-component response regulator; Provisional; Region: PRK11173 94122002451 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 94122002452 active site 94122002453 phosphorylation site [posttranslational modification] 94122002454 intermolecular recognition site; other site 94122002455 dimerization interface [polypeptide binding]; other site 94122002456 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 94122002457 DNA binding site [nucleotide binding] 94122002458 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 94122002459 aspartate kinase III; Validated; Region: PRK09084 94122002460 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 94122002461 nucleotide binding site [chemical binding]; other site 94122002462 substrate binding site [chemical binding]; other site 94122002463 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 94122002464 dimer interface [polypeptide binding]; other site 94122002465 allosteric regulatory binding pocket; other site 94122002466 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 94122002467 dimer interface [polypeptide binding]; other site 94122002468 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 94122002469 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 94122002470 active site 94122002471 Zn binding site [ion binding]; other site 94122002472 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 94122002473 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 94122002474 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 94122002475 transcriptional regulator NarL; Provisional; Region: PRK10651 94122002476 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 94122002477 active site 94122002478 phosphorylation site [posttranslational modification] 94122002479 intermolecular recognition site; other site 94122002480 dimerization interface [polypeptide binding]; other site 94122002481 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 94122002482 DNA binding residues [nucleotide binding] 94122002483 dimerization interface [polypeptide binding]; other site 94122002484 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 94122002485 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 94122002486 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 94122002487 Histidine kinase; Region: HisKA_3; pfam07730 94122002488 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 94122002489 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 94122002490 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 94122002491 GAF domain; Region: GAF; cl15785 94122002492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002493 metal binding site [ion binding]; metal-binding site 94122002494 active site 94122002495 I-site; other site 94122002496 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 94122002497 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 94122002498 active site 94122002499 lipoprotein; Provisional; Region: PRK11443 94122002500 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 94122002501 V-type ATP synthase subunit I; Validated; Region: PRK05771 94122002502 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 94122002503 ATP binding site [chemical binding]; other site 94122002504 Helix-turn-helix domains; Region: HTH; cl00088 94122002505 putative outer membrane lipoprotein; Provisional; Region: PRK10510 94122002506 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122002507 ligand binding site [chemical binding]; other site 94122002508 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 94122002509 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 94122002510 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 94122002511 MgtE intracellular N domain; Region: MgtE_N; cl15244 94122002512 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 94122002513 Divalent cation transporter; Region: MgtE; cl00786 94122002514 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 94122002515 dimerization domain swap beta strand [polypeptide binding]; other site 94122002516 regulatory protein interface [polypeptide binding]; other site 94122002517 active site 94122002518 regulatory phosphorylation site [posttranslational modification]; other site 94122002519 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 94122002520 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 94122002521 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 94122002522 active site 94122002523 phosphorylation site [posttranslational modification] 94122002524 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 94122002525 30S subunit binding site; other site 94122002526 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 94122002527 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 94122002528 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 94122002529 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 94122002530 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 94122002531 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 94122002532 Walker A/P-loop; other site 94122002533 ATP binding site [chemical binding]; other site 94122002534 Q-loop/lid; other site 94122002535 ABC transporter signature motif; other site 94122002536 Walker B; other site 94122002537 D-loop; other site 94122002538 H-loop/switch region; other site 94122002539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 94122002540 OstA-like protein; Region: OstA; cl00844 94122002541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 94122002542 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 94122002543 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122002544 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 94122002545 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 94122002546 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 94122002547 putative active site [active] 94122002548 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 94122002549 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 94122002550 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 94122002551 Walker A/P-loop; other site 94122002552 ATP binding site [chemical binding]; other site 94122002553 Q-loop/lid; other site 94122002554 ABC transporter signature motif; other site 94122002555 Walker B; other site 94122002556 D-loop; other site 94122002557 H-loop/switch region; other site 94122002558 Permease; Region: Permease; cl00510 94122002559 mce related protein; Region: MCE; pfam02470 94122002560 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 94122002561 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 94122002562 anti sigma factor interaction site; other site 94122002563 regulatory phosphorylation site [posttranslational modification]; other site 94122002564 BolA-like protein; Region: BolA; cl00386 94122002565 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 94122002566 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 94122002567 hinge; other site 94122002568 active site 94122002569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122002570 Helix-turn-helix domains; Region: HTH; cl00088 94122002571 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 94122002572 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 94122002573 CoenzymeA binding site [chemical binding]; other site 94122002574 subunit interaction site [polypeptide binding]; other site 94122002575 PHB binding site; other site 94122002576 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 94122002577 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 94122002578 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 94122002579 protein binding site [polypeptide binding]; other site 94122002580 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 94122002581 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 94122002582 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 94122002583 protein binding site [polypeptide binding]; other site 94122002584 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 94122002585 Predicted ATPase [General function prediction only]; Region: COG1485 94122002586 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 94122002587 23S rRNA interface [nucleotide binding]; other site 94122002588 L3 interface [polypeptide binding]; other site 94122002589 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 94122002590 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 94122002591 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 94122002592 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 94122002593 GDP-binding site [chemical binding]; other site 94122002594 ACT binding site; other site 94122002595 IMP binding site; other site 94122002596 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 94122002597 exoribonuclease R; Provisional; Region: PRK11642 94122002598 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 94122002599 RNB domain; Region: RNB; pfam00773 94122002600 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 94122002601 RNA binding site [nucleotide binding]; other site 94122002602 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 94122002603 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 94122002604 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 94122002605 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 94122002606 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122002607 putative substrate translocation pore; other site 94122002608 Protein of unknown function, DUF481; Region: DUF481; cl01213 94122002609 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 94122002610 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 94122002611 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 94122002612 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 94122002613 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 94122002614 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 94122002615 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 94122002616 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 94122002617 G1 box; other site 94122002618 GTP/Mg2+ binding site [chemical binding]; other site 94122002619 Switch I region; other site 94122002620 G2 box; other site 94122002621 Switch II region; other site 94122002622 G3 box; other site 94122002623 G4 box; other site 94122002624 G5 box; other site 94122002625 biotin synthase; Provisional; Region: PRK07094 94122002626 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 94122002627 FeS/SAM binding site; other site 94122002628 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 94122002629 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 94122002630 FeS/SAM binding site; other site 94122002631 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 94122002632 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 94122002633 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 94122002634 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 94122002635 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 94122002636 4Fe-4S binding domain; Region: Fer4; cl02805 94122002637 4Fe-4S binding domain; Region: Fer4; cl02805 94122002638 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 94122002639 Peptidase S46; Region: Peptidase_S46; pfam10459 94122002640 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 94122002641 replicative DNA helicase; Provisional; Region: PRK08840 94122002642 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 94122002643 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 94122002644 Walker A motif; other site 94122002645 ATP binding site [chemical binding]; other site 94122002646 Walker B motif; other site 94122002647 DNA binding loops [nucleotide binding] 94122002648 alanine racemase; Reviewed; Region: alr; PRK00053 94122002649 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 94122002650 active site 94122002651 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 94122002652 substrate binding site [chemical binding]; other site 94122002653 catalytic residues [active] 94122002654 dimer interface [polypeptide binding]; other site 94122002655 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 94122002656 Chemotaxis phosphatase CheX; Region: CheX; cl15816 94122002657 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 94122002658 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 94122002659 N-terminal plug; other site 94122002660 ligand-binding site [chemical binding]; other site 94122002661 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122002662 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 94122002663 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 94122002664 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 94122002665 FMN binding site [chemical binding]; other site 94122002666 active site 94122002667 catalytic residues [active] 94122002668 substrate binding site [chemical binding]; other site 94122002669 PspC domain; Region: PspC; cl00864 94122002670 enoyl-CoA hydratase; Provisional; Region: PRK06688 94122002671 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 94122002672 substrate binding site [chemical binding]; other site 94122002673 oxyanion hole (OAH) forming residues; other site 94122002674 trimer interface [polypeptide binding]; other site 94122002675 Protein of unknown function (DUF461); Region: DUF461; cl01071 94122002676 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 94122002677 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 94122002678 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 94122002679 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 94122002680 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 94122002681 dimer interface [polypeptide binding]; other site 94122002682 ADP-ribose binding site [chemical binding]; other site 94122002683 active site 94122002684 nudix motif; other site 94122002685 metal binding site [ion binding]; metal-binding site 94122002686 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 94122002687 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 94122002688 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 94122002689 active site 94122002690 metal binding site [ion binding]; metal-binding site 94122002691 hexamer interface [polypeptide binding]; other site 94122002692 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 94122002693 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 94122002694 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 94122002695 ATP binding site [chemical binding]; other site 94122002696 Mg2+ binding site [ion binding]; other site 94122002697 G-X-G motif; other site 94122002698 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 94122002699 anchoring element; other site 94122002700 dimer interface [polypeptide binding]; other site 94122002701 ATP binding site [chemical binding]; other site 94122002702 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 94122002703 active site 94122002704 metal binding site [ion binding]; metal-binding site 94122002705 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 94122002706 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 94122002707 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 94122002708 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 94122002709 CAP-like domain; other site 94122002710 active site 94122002711 primary dimer interface [polypeptide binding]; other site 94122002712 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 94122002713 eyelet of channel; other site 94122002714 trimer interface [polypeptide binding]; other site 94122002715 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 94122002716 eyelet of channel; other site 94122002717 trimer interface [polypeptide binding]; other site 94122002718 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 94122002719 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 94122002720 putative ATP binding site [chemical binding]; other site 94122002721 putative substrate interface [chemical binding]; other site 94122002722 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 94122002723 sensor protein ZraS; Provisional; Region: PRK10364 94122002724 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 94122002725 dimer interface [polypeptide binding]; other site 94122002726 phosphorylation site [posttranslational modification] 94122002727 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 94122002728 ATP binding site [chemical binding]; other site 94122002729 Mg2+ binding site [ion binding]; other site 94122002730 G-X-G motif; other site 94122002731 Superinfection exclusion protein B; Region: SieB; pfam14163 94122002732 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 94122002733 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 94122002734 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122002735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122002736 dimer interface [polypeptide binding]; other site 94122002737 putative CheW interface [polypeptide binding]; other site 94122002738 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 94122002739 octamerization interface [polypeptide binding]; other site 94122002740 diferric-oxygen binding site [ion binding]; other site 94122002741 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 94122002742 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 94122002743 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 94122002744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002745 Walker A/P-loop; other site 94122002746 ATP binding site [chemical binding]; other site 94122002747 Q-loop/lid; other site 94122002748 ABC transporter signature motif; other site 94122002749 Walker B; other site 94122002750 D-loop; other site 94122002751 H-loop/switch region; other site 94122002752 TOBE domain; Region: TOBE_2; cl01440 94122002753 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 94122002754 dimer interface [polypeptide binding]; other site 94122002755 conserved gate region; other site 94122002756 putative PBP binding loops; other site 94122002757 ABC-ATPase subunit interface; other site 94122002758 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 94122002759 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 94122002760 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 94122002761 Helix-turn-helix domains; Region: HTH; cl00088 94122002762 TOBE domain; Region: TOBE_2; cl01440 94122002763 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 94122002764 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 94122002765 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 94122002766 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122002767 substrate binding pocket [chemical binding]; other site 94122002768 membrane-bound complex binding site; other site 94122002769 hinge residues; other site 94122002770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122002771 metal binding site [ion binding]; metal-binding site 94122002772 active site 94122002773 I-site; other site 94122002774 PAP2_like_5 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_5; cd03394 94122002775 active site 94122002776 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 94122002777 malate dehydrogenase; Provisional; Region: PRK13529 94122002778 Malic enzyme, N-terminal domain; Region: malic; pfam00390 94122002779 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 94122002780 NAD(P) binding site [chemical binding]; other site 94122002781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 94122002782 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 94122002783 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 94122002784 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 94122002785 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 94122002786 Bacterial PH domain; Region: DUF304; cl01348 94122002787 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122002788 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 94122002789 N-terminal plug; other site 94122002790 ligand-binding site [chemical binding]; other site 94122002791 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122002792 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 94122002793 putative C-terminal domain interface [polypeptide binding]; other site 94122002794 putative GSH binding site (G-site) [chemical binding]; other site 94122002795 putative dimer interface [polypeptide binding]; other site 94122002796 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 94122002797 dimer interface [polypeptide binding]; other site 94122002798 N-terminal domain interface [polypeptide binding]; other site 94122002799 substrate binding pocket (H-site) [chemical binding]; other site 94122002800 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 94122002801 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 94122002802 synthetase active site [active] 94122002803 NTP binding site [chemical binding]; other site 94122002804 metal binding site [ion binding]; metal-binding site 94122002805 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 94122002806 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 94122002807 active site 94122002808 Zn binding site [ion binding]; other site 94122002809 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 94122002810 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 94122002811 RNA binding surface [nucleotide binding]; other site 94122002812 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 94122002813 active site 94122002814 uracil binding [chemical binding]; other site 94122002815 Uncharacterized conserved protein [Function unknown]; Region: COG3595 94122002816 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 94122002817 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 94122002818 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 94122002819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122002820 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 94122002821 DNA binding residues [nucleotide binding] 94122002822 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 94122002823 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122002824 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122002825 dimer interface [polypeptide binding]; other site 94122002826 putative CheW interface [polypeptide binding]; other site 94122002827 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 94122002828 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 94122002829 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122002830 active site 94122002831 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 94122002832 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 94122002833 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 94122002834 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 94122002835 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 94122002836 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 94122002837 tRNA; other site 94122002838 putative tRNA binding site [nucleotide binding]; other site 94122002839 putative NADP binding site [chemical binding]; other site 94122002840 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 94122002841 peptide chain release factor 1; Validated; Region: prfA; PRK00591 94122002842 RF-1 domain; Region: RF-1; cl02875 94122002843 RF-1 domain; Region: RF-1; cl02875 94122002844 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 94122002845 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 94122002846 Predicted acetyltransferase [General function prediction only]; Region: COG3153 94122002847 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122002848 Coenzyme A binding pocket [chemical binding]; other site 94122002849 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 94122002850 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 94122002851 Tetratricopeptide repeat; Region: TPR_9; pfam13371 94122002852 Protein of unknown function (DUF819); Region: DUF819; cl02317 94122002853 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 94122002854 NeuB family; Region: NeuB; cl00496 94122002855 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 94122002856 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 94122002857 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 94122002858 Nitrogen regulatory protein P-II; Region: P-II; cl00412 94122002859 Nitrogen regulatory protein P-II; Region: P-II; smart00938 94122002860 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 94122002861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122002862 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 94122002863 VanZ like family; Region: VanZ; cl01971 94122002864 Protein of unknown function (DUF520); Region: DUF520; cl00723 94122002865 AmpG-like permease; Region: 2A0125; TIGR00901 94122002866 muropeptide transporter; Validated; Region: ampG; PRK11010 94122002867 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 94122002868 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 94122002869 substrate binding site [chemical binding]; other site 94122002870 hypothetical protein; Provisional; Region: PRK11627 94122002871 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 94122002872 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 94122002873 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 94122002874 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 94122002875 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 94122002876 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 94122002877 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 94122002878 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 94122002879 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 94122002880 aromatic acid decarboxylase; Validated; Region: PRK05920 94122002881 Flavoprotein; Region: Flavoprotein; cl08021 94122002882 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122002883 active site 94122002884 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 94122002885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002886 Walker A/P-loop; other site 94122002887 ATP binding site [chemical binding]; other site 94122002888 Q-loop/lid; other site 94122002889 ABC transporter signature motif; other site 94122002890 Walker B; other site 94122002891 D-loop; other site 94122002892 H-loop/switch region; other site 94122002893 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122002894 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 94122002895 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 94122002896 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 94122002897 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122002898 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 94122002899 Zn binding site [ion binding]; other site 94122002900 REJ domain; Region: REJ; pfam02010 94122002901 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 94122002902 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 94122002903 Helix-turn-helix domains; Region: HTH; cl00088 94122002904 AsnC family; Region: AsnC_trans_reg; pfam01037 94122002905 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 94122002906 active site 94122002907 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 94122002908 Peptidase family U32; Region: Peptidase_U32; cl03113 94122002909 Collagenase; Region: DUF3656; pfam12392 94122002910 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 94122002911 CAAX protease self-immunity; Region: Abi; cl00558 94122002912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122002913 Cupin domain; Region: Cupin_2; cl09118 94122002914 Predicted ATPase [General function prediction only]; Region: COG4637 94122002915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002916 Walker A/P-loop; other site 94122002917 ATP binding site [chemical binding]; other site 94122002918 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 94122002919 active site 94122002920 Fe-S metabolism associated domain; Region: SufE; cl00951 94122002921 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 94122002922 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 94122002923 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122002924 catalytic residue [active] 94122002925 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 94122002926 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 94122002927 dimerization interface [polypeptide binding]; other site 94122002928 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122002929 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122002930 dimer interface [polypeptide binding]; other site 94122002931 putative CheW interface [polypeptide binding]; other site 94122002932 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 94122002933 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 94122002934 ATP binding site [chemical binding]; other site 94122002935 Mg++ binding site [ion binding]; other site 94122002936 motif III; other site 94122002937 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 94122002938 nucleotide binding region [chemical binding]; other site 94122002939 ATP-binding site [chemical binding]; other site 94122002940 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 94122002941 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 94122002942 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122002943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002944 Walker A/P-loop; other site 94122002945 ATP binding site [chemical binding]; other site 94122002946 Q-loop/lid; other site 94122002947 ABC transporter signature motif; other site 94122002948 Walker B; other site 94122002949 D-loop; other site 94122002950 H-loop/switch region; other site 94122002951 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 94122002952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122002953 Walker A/P-loop; other site 94122002954 ATP binding site [chemical binding]; other site 94122002955 Q-loop/lid; other site 94122002956 ABC transporter signature motif; other site 94122002957 Walker B; other site 94122002958 D-loop; other site 94122002959 H-loop/switch region; other site 94122002960 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 94122002961 putative active site [active] 94122002962 putative metal binding residues [ion binding]; other site 94122002963 signature motif; other site 94122002964 putative triphosphate binding site [ion binding]; other site 94122002965 dimer interface [polypeptide binding]; other site 94122002966 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122002967 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122002968 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122002969 DNA binding residues [nucleotide binding] 94122002970 Protein of unknown function, DUF599; Region: DUF599; cl01575 94122002971 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 94122002972 Proline dehydrogenase; Region: Pro_dh; cl03282 94122002973 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 94122002974 Glutamate binding site [chemical binding]; other site 94122002975 NAD binding site [chemical binding]; other site 94122002976 catalytic residues [active] 94122002977 Bacterial SH3 domain; Region: SH3_3; cl02551 94122002978 Phosphate transporter family; Region: PHO4; cl00396 94122002979 Phosphate transporter family; Region: PHO4; cl00396 94122002980 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 94122002981 Uncharacterized conserved protein [Function unknown]; Region: COG3025 94122002982 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 94122002983 putative active site [active] 94122002984 putative metal binding residues [ion binding]; other site 94122002985 signature motif; other site 94122002986 putative triphosphate binding site [ion binding]; other site 94122002987 Ion transport protein; Region: Ion_trans; pfam00520 94122002988 Ion channel; Region: Ion_trans_2; cl11596 94122002989 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 94122002990 PspA/IM30 family; Region: PspA_IM30; pfam04012 94122002991 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 94122002992 spermidine synthase; Provisional; Region: PRK03612 94122002993 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 94122002994 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 94122002995 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 94122002996 metal binding triad; other site 94122002997 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 94122002998 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 94122002999 metal binding triad; other site 94122003000 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 94122003001 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 94122003002 GAF domain; Region: GAF; cl15785 94122003003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122003004 metal binding site [ion binding]; metal-binding site 94122003005 active site 94122003006 I-site; other site 94122003007 Domain of unknown function (DUF897); Region: DUF897; cl01312 94122003008 Helix-turn-helix domains; Region: HTH; cl00088 94122003009 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 94122003010 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 94122003011 dimerization interface [polypeptide binding]; other site 94122003012 LysE type translocator; Region: LysE; cl00565 94122003013 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 94122003014 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 94122003015 putative NAD(P) binding site [chemical binding]; other site 94122003016 putative active site [active] 94122003017 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122003018 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 94122003019 DNA binding residues [nucleotide binding] 94122003020 Predicted ATPase [General function prediction only]; Region: COG1485 94122003021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122003022 Walker A/P-loop; other site 94122003023 ATP binding site [chemical binding]; other site 94122003024 ABC transporter signature motif; other site 94122003025 Walker B; other site 94122003026 D-loop; other site 94122003027 H-loop/switch region; other site 94122003028 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 94122003029 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122003030 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122003031 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122003032 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122003033 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 94122003034 putative active site [active] 94122003035 Zn binding site [ion binding]; other site 94122003036 L,D-transpeptidase; Provisional; Region: PRK10190 94122003037 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122003038 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 94122003039 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 94122003040 GAF domain; Region: GAF; cl15785 94122003041 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 94122003042 Walker A motif; other site 94122003043 ATP binding site [chemical binding]; other site 94122003044 Walker B motif; other site 94122003045 arginine finger; other site 94122003046 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 94122003047 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 94122003048 potassium/proton antiporter; Reviewed; Region: PRK05326 94122003049 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 94122003050 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 94122003051 Transporter associated domain; Region: CorC_HlyC; cl08393 94122003052 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 94122003053 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 94122003054 putative acyl-acceptor binding pocket; other site 94122003055 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 94122003056 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 94122003057 putative ribose interaction site [chemical binding]; other site 94122003058 putative ADP binding site [chemical binding]; other site 94122003059 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122003060 active site 94122003061 HIGH motif; other site 94122003062 nucleotide binding site [chemical binding]; other site 94122003063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122003064 Helix-turn-helix domains; Region: HTH; cl00088 94122003065 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 94122003066 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 94122003067 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 94122003068 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 94122003069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122003070 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 94122003071 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 94122003072 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122003073 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 94122003074 FAD binding pocket [chemical binding]; other site 94122003075 FAD binding motif [chemical binding]; other site 94122003076 catalytic residues [active] 94122003077 NAD binding pocket [chemical binding]; other site 94122003078 phosphate binding motif [ion binding]; other site 94122003079 beta-alpha-beta structure motif; other site 94122003080 sulfite reductase subunit beta; Provisional; Region: PRK13504 94122003081 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 94122003082 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 94122003083 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 94122003084 Active Sites [active] 94122003085 Transglycosylase; Region: Transgly; cl07896 94122003086 Predicted ATPase [General function prediction only]; Region: COG3903 94122003087 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 94122003088 Active site serine [active] 94122003089 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 94122003090 dimerization interface [polypeptide binding]; other site 94122003091 substrate binding site [chemical binding]; other site 94122003092 active site 94122003093 calcium binding site [ion binding]; other site 94122003094 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 94122003095 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 94122003096 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 94122003097 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 94122003098 Active Sites [active] 94122003099 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 94122003100 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 94122003101 CysD dimerization site [polypeptide binding]; other site 94122003102 G1 box; other site 94122003103 putative GEF interaction site [polypeptide binding]; other site 94122003104 GTP/Mg2+ binding site [chemical binding]; other site 94122003105 Switch I region; other site 94122003106 G2 box; other site 94122003107 G3 box; other site 94122003108 Switch II region; other site 94122003109 G4 box; other site 94122003110 G5 box; other site 94122003111 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 94122003112 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 94122003113 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 94122003114 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 94122003115 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 94122003116 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 94122003117 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 94122003118 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 94122003119 ligand-binding site [chemical binding]; other site 94122003120 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 94122003121 dimer interface [polypeptide binding]; other site 94122003122 phosphorylation site [posttranslational modification] 94122003123 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 94122003124 ATP binding site [chemical binding]; other site 94122003125 Mg2+ binding site [ion binding]; other site 94122003126 G-X-G motif; other site 94122003127 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 94122003128 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 94122003129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122003130 metal binding site [ion binding]; metal-binding site 94122003131 active site 94122003132 I-site; other site 94122003133 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 94122003134 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 94122003135 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 94122003136 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122003137 putative substrate translocation pore; other site 94122003138 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122003139 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 94122003140 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 94122003141 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 94122003142 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 94122003143 catalytic residues [active] 94122003144 hinge region; other site 94122003145 alpha helical domain; other site 94122003146 DNA-J related protein; Region: DNAJ_related; pfam12339 94122003147 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 94122003148 HSP70 interaction site [polypeptide binding]; other site 94122003149 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 94122003150 dimer interface [polypeptide binding]; other site 94122003151 FMN binding site [chemical binding]; other site 94122003152 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 94122003153 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 94122003154 ligand binding site [chemical binding]; other site 94122003155 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 94122003156 RNA binding site [nucleotide binding]; other site 94122003157 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 94122003158 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 94122003159 Walker A/P-loop; other site 94122003160 ATP binding site [chemical binding]; other site 94122003161 Q-loop/lid; other site 94122003162 ABC transporter signature motif; other site 94122003163 Walker B; other site 94122003164 D-loop; other site 94122003165 H-loop/switch region; other site 94122003166 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 94122003167 dimer interface [polypeptide binding]; other site 94122003168 conserved gate region; other site 94122003169 putative PBP binding loops; other site 94122003170 ABC-ATPase subunit interface; other site 94122003171 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 94122003172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122003173 substrate binding pocket [chemical binding]; other site 94122003174 membrane-bound complex binding site; other site 94122003175 hinge residues; other site 94122003176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122003177 Helix-turn-helix domains; Region: HTH; cl00088 94122003178 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 94122003179 putative dimerization interface [polypeptide binding]; other site 94122003180 LrgA family; Region: LrgA; cl00608 94122003181 LrgB-like family; Region: LrgB; cl00596 94122003182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122003183 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122003184 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 94122003185 Carbon starvation protein CstA; Region: CstA; pfam02554 94122003186 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 94122003187 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 94122003188 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 94122003189 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 94122003190 catalytic triad [active] 94122003191 Cupin domain; Region: Cupin_2; cl09118 94122003192 Helix-turn-helix domain; Region: HTH_18; pfam12833 94122003193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122003194 Phosphate transporter family; Region: PHO4; cl00396 94122003195 Phosphate transporter family; Region: PHO4; cl00396 94122003196 Protein of unknown function DUF72; Region: DUF72; cl00777 94122003197 PAS domain S-box; Region: sensory_box; TIGR00229 94122003198 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 94122003199 putative active site [active] 94122003200 heme pocket [chemical binding]; other site 94122003201 GAF domain; Region: GAF_2; pfam13185 94122003202 GAF domain; Region: GAF; cl15785 94122003203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122003204 metal binding site [ion binding]; metal-binding site 94122003205 active site 94122003206 I-site; other site 94122003207 Cache domain; Region: Cache_1; pfam02743 94122003208 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 94122003209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122003210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122003211 dimer interface [polypeptide binding]; other site 94122003212 putative CheW interface [polypeptide binding]; other site 94122003213 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 94122003214 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 94122003215 Zn binding site [ion binding]; other site 94122003216 TolB amino-terminal domain; Region: TolB_N; cl00639 94122003217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 94122003218 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 94122003219 active site 94122003220 catalytic residues [active] 94122003221 metal binding site [ion binding]; metal-binding site 94122003222 SlyX; Region: SlyX; cl01090 94122003223 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 94122003224 structural tetrad; other site 94122003225 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 94122003226 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 94122003227 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122003228 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 94122003229 Lamin Tail Domain; Region: LTD; pfam00932 94122003230 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 94122003231 generic binding surface II; other site 94122003232 generic binding surface I; other site 94122003233 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 94122003234 putative catalytic site [active] 94122003235 putative metal binding site [ion binding]; other site 94122003236 putative phosphate binding site [ion binding]; other site 94122003237 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 94122003238 CoenzymeA binding site [chemical binding]; other site 94122003239 subunit interaction site [polypeptide binding]; other site 94122003240 PHB binding site; other site 94122003241 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 94122003242 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 94122003243 tetramer interface [polypeptide binding]; other site 94122003244 heme binding pocket [chemical binding]; other site 94122003245 NADPH binding site [chemical binding]; other site 94122003246 Predicted membrane protein [Function unknown]; Region: COG2119 94122003247 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 94122003248 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 94122003249 yybP-ykoY element as predicted by Rfam (RF00080), score 65.65; riboswitch with unknown function 94122003250 aromatic amino acid transport protein; Region: araaP; TIGR00837 94122003251 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 94122003252 Peptidase S46; Region: Peptidase_S46; pfam10459 94122003253 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122003254 ligand binding site [chemical binding]; other site 94122003255 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 94122003256 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 94122003257 RNA binding surface [nucleotide binding]; other site 94122003258 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 94122003259 probable active site [active] 94122003260 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 94122003261 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 94122003262 FMN-binding domain; Region: FMN_bind; cl01081 94122003263 ApbE family; Region: ApbE; cl00643 94122003264 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 94122003265 dimerization interface [polypeptide binding]; other site 94122003266 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122003267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122003268 dimer interface [polypeptide binding]; other site 94122003269 putative CheW interface [polypeptide binding]; other site 94122003270 EamA-like transporter family; Region: EamA; cl01037 94122003271 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122003272 EamA-like transporter family; Region: EamA; cl01037 94122003273 Helix-turn-helix domain; Region: HTH_18; pfam12833 94122003274 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 94122003275 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 94122003276 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 94122003277 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 94122003278 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 94122003279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122003280 DNA-binding site [nucleotide binding]; DNA binding site 94122003281 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 94122003282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122003283 homodimer interface [polypeptide binding]; other site 94122003284 catalytic residue [active] 94122003285 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 94122003286 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 94122003287 homodimer interface [polypeptide binding]; other site 94122003288 substrate-cofactor binding pocket; other site 94122003289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122003290 catalytic residue [active] 94122003291 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 94122003292 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 94122003293 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 94122003294 S-adenosylmethionine binding site [chemical binding]; other site 94122003295 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122003296 BolA-like protein; Region: BolA; cl00386 94122003297 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 94122003298 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 94122003299 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 94122003300 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122003301 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 94122003302 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 94122003303 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 94122003304 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 94122003305 FMN-binding domain; Region: FMN_bind; cl01081 94122003306 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 94122003307 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122003308 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122003309 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 94122003310 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 94122003311 FAD binding pocket [chemical binding]; other site 94122003312 FAD binding motif [chemical binding]; other site 94122003313 phosphate binding motif [ion binding]; other site 94122003314 beta-alpha-beta structure motif; other site 94122003315 NAD binding pocket [chemical binding]; other site 94122003316 ApbE family; Region: ApbE; cl00643 94122003317 Protein of unknown function (DUF539); Region: DUF539; cl01129 94122003318 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 94122003319 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 94122003320 heme binding site [chemical binding]; other site 94122003321 ferroxidase pore; other site 94122003322 ferroxidase diiron center [ion binding]; other site 94122003323 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 94122003324 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 94122003325 heme binding site [chemical binding]; other site 94122003326 ferroxidase pore; other site 94122003327 ferroxidase diiron center [ion binding]; other site 94122003328 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 94122003329 dimerization interface [polypeptide binding]; other site 94122003330 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122003331 dimer interface [polypeptide binding]; other site 94122003332 putative CheW interface [polypeptide binding]; other site 94122003333 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 94122003334 active site 94122003335 DNA polymerase IV; Validated; Region: PRK02406 94122003336 DNA binding site [nucleotide binding] 94122003337 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 94122003338 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 94122003339 metal binding site [ion binding]; metal-binding site 94122003340 dimer interface [polypeptide binding]; other site 94122003341 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 94122003342 interface (dimer of trimers) [polypeptide binding]; other site 94122003343 Substrate-binding/catalytic site; other site 94122003344 Zn-binding sites [ion binding]; other site 94122003345 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 94122003346 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 94122003347 N-terminal plug; other site 94122003348 ligand-binding site [chemical binding]; other site 94122003349 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 94122003350 gamma-glutamyl kinase; Provisional; Region: PRK05429 94122003351 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 94122003352 nucleotide binding site [chemical binding]; other site 94122003353 homotetrameric interface [polypeptide binding]; other site 94122003354 putative phosphate binding site [ion binding]; other site 94122003355 putative allosteric binding site; other site 94122003356 PUA domain; Region: PUA; cl00607 94122003357 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 94122003358 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 94122003359 putative catalytic cysteine [active] 94122003360 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 94122003361 putative deacylase active site [active] 94122003362 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122003363 EamA-like transporter family; Region: EamA; cl01037 94122003364 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 94122003365 chaperone protein DnaJ; Provisional; Region: PRK10767 94122003366 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 94122003367 HSP70 interaction site [polypeptide binding]; other site 94122003368 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 94122003369 substrate binding site [polypeptide binding]; other site 94122003370 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 94122003371 Zn binding sites [ion binding]; other site 94122003372 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 94122003373 dimer interface [polypeptide binding]; other site 94122003374 Uncharacterized conserved protein [Function unknown]; Region: COG4748 94122003375 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122003376 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 94122003377 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 94122003378 ATP binding site [chemical binding]; other site 94122003379 Mg++ binding site [ion binding]; other site 94122003380 motif III; other site 94122003381 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 94122003382 nucleotide binding region [chemical binding]; other site 94122003383 ATP-binding site [chemical binding]; other site 94122003384 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122003385 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122003386 Peptidase family M48; Region: Peptidase_M48; cl12018 94122003387 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 94122003388 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 94122003389 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122003390 dihydrodipicolinate reductase; Provisional; Region: PRK00048 94122003391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122003392 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 94122003393 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 94122003394 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 94122003395 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 94122003396 catalytic site [active] 94122003397 subunit interface [polypeptide binding]; other site 94122003398 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 94122003399 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 94122003400 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122003401 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 94122003402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 94122003403 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122003404 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 94122003405 IMP binding site; other site 94122003406 dimer interface [polypeptide binding]; other site 94122003407 interdomain contacts; other site 94122003408 partial ornithine binding site; other site 94122003409 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122003410 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 94122003411 substrate binding pocket [chemical binding]; other site 94122003412 membrane-bound complex binding site; other site 94122003413 hinge residues; other site 94122003414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122003415 dimer interface [polypeptide binding]; other site 94122003416 putative CheW interface [polypeptide binding]; other site 94122003417 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 94122003418 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 94122003419 MgtE intracellular N domain; Region: MgtE_N; cl15244 94122003420 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 94122003421 Divalent cation transporter; Region: MgtE; cl00786 94122003422 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 94122003423 putative catalytic site [active] 94122003424 putative metal binding site [ion binding]; other site 94122003425 putative phosphate binding site [ion binding]; other site 94122003426 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 94122003427 Protein of unknown function (DUF692); Region: DUF692; cl01263 94122003428 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 94122003429 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 94122003430 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 94122003431 PUA domain; Region: PUA; cl00607 94122003432 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 94122003433 putative RNA binding site [nucleotide binding]; other site 94122003434 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 94122003435 S-adenosylmethionine binding site [chemical binding]; other site 94122003436 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 94122003437 tetramer (dimer of dimers) interface [polypeptide binding]; other site 94122003438 active site 94122003439 dimer interface [polypeptide binding]; other site 94122003440 Protein of unknown function (DUF808); Region: DUF808; cl01002 94122003441 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 94122003442 catalytic site [active] 94122003443 putative active site [active] 94122003444 putative substrate binding site [chemical binding]; other site 94122003445 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122003446 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 94122003447 N-terminal plug; other site 94122003448 ligand-binding site [chemical binding]; other site 94122003449 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 94122003450 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 94122003451 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 94122003452 dimerization interface [polypeptide binding]; other site 94122003453 DPS ferroxidase diiron center [ion binding]; other site 94122003454 ion pore; other site 94122003455 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 94122003456 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 94122003457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122003458 Coenzyme A binding pocket [chemical binding]; other site 94122003459 lipoyl synthase; Provisional; Region: PRK05481 94122003460 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 94122003461 FeS/SAM binding site; other site 94122003462 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 94122003463 Protein of unknown function (DUF493); Region: DUF493; cl01102 94122003464 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 94122003465 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122003466 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 94122003467 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 94122003468 Sporulation related domain; Region: SPOR; cl10051 94122003469 Transglycosylase SLT domain; Region: SLT_2; pfam13406 94122003470 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 94122003471 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122003472 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 94122003473 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 94122003474 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 94122003475 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122003476 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 94122003477 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 94122003478 Oligomerisation domain; Region: Oligomerisation; cl00519 94122003479 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 94122003480 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 94122003481 active site 94122003482 (T/H)XGH motif; other site 94122003483 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 94122003484 DNA polymerase III, delta subunit; Region: holA; TIGR01128 94122003485 Lipopolysaccharide-assembly; Region: LptE; cl01125 94122003486 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 94122003487 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 94122003488 HIGH motif; other site 94122003489 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 94122003490 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122003491 active site 94122003492 KMSKS motif; other site 94122003493 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 94122003494 tRNA binding surface [nucleotide binding]; other site 94122003495 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 94122003496 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 94122003497 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 94122003498 putative active site [active] 94122003499 catalytic triad [active] 94122003500 putative dimer interface [polypeptide binding]; other site 94122003501 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 94122003502 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 94122003503 Transporter associated domain; Region: CorC_HlyC; cl08393 94122003504 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 94122003505 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 94122003506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122003507 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 94122003508 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 94122003509 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 94122003510 FeS/SAM binding site; other site 94122003511 TRAM domain; Region: TRAM; cl01282 94122003512 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 94122003513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122003514 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 94122003515 putative active site [active] 94122003516 catalytic residue [active] 94122003517 GTP-binding protein YchF; Reviewed; Region: PRK09601 94122003518 YchF GTPase; Region: YchF; cd01900 94122003519 G1 box; other site 94122003520 GTP/Mg2+ binding site [chemical binding]; other site 94122003521 Switch I region; other site 94122003522 G2 box; other site 94122003523 Switch II region; other site 94122003524 G3 box; other site 94122003525 G4 box; other site 94122003526 G5 box; other site 94122003527 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 94122003528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 94122003529 FlgD Ig-like domain; Region: FlgD_ig; cl15790 94122003530 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 94122003531 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 94122003532 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 94122003533 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 94122003534 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 94122003535 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 94122003536 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 94122003537 Protein export membrane protein; Region: SecD_SecF; cl14618 94122003538 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 94122003539 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 94122003540 Protein export membrane protein; Region: SecD_SecF; cl14618 94122003541 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 94122003542 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 94122003543 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 94122003544 S-adenosylmethionine binding site [chemical binding]; other site 94122003545 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 94122003546 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 94122003547 Walker A motif; other site 94122003548 ATP binding site [chemical binding]; other site 94122003549 Walker B motif; other site 94122003550 arginine finger; other site 94122003551 Peptidase family M41; Region: Peptidase_M41; pfam01434 94122003552 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 94122003553 dihydropteroate synthase; Region: DHPS; TIGR01496 94122003554 substrate binding pocket [chemical binding]; other site 94122003555 dimer interface [polypeptide binding]; other site 94122003556 inhibitor binding site; inhibition site 94122003557 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 94122003558 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 94122003559 active site 94122003560 substrate binding site [chemical binding]; other site 94122003561 metal binding site [ion binding]; metal-binding site 94122003562 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 94122003563 substrate binding site [chemical binding]; other site 94122003564 dimer interface [polypeptide binding]; other site 94122003565 catalytic triad [active] 94122003566 Preprotein translocase SecG subunit; Region: SecG; cl09123 94122003567 ribosome maturation protein RimP; Reviewed; Region: PRK00092 94122003568 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 94122003569 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 94122003570 Sm1 motif; other site 94122003571 D1 - D2 interaction site; other site 94122003572 D3 - B interaction site; other site 94122003573 Hfq - Hfq interaction site; other site 94122003574 RNA binding pocket [nucleotide binding]; other site 94122003575 Sm2 motif; other site 94122003576 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 94122003577 NusA N-terminal domain; Region: NusA_N; pfam08529 94122003578 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 94122003579 RNA binding site [nucleotide binding]; other site 94122003580 homodimer interface [polypeptide binding]; other site 94122003581 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 94122003582 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 94122003583 G-X-X-G motif; other site 94122003584 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 94122003585 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 94122003586 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 94122003587 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 94122003588 translation initiation factor IF-2; Region: IF-2; TIGR00487 94122003589 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 94122003590 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 94122003591 G1 box; other site 94122003592 putative GEF interaction site [polypeptide binding]; other site 94122003593 GTP/Mg2+ binding site [chemical binding]; other site 94122003594 Switch I region; other site 94122003595 G2 box; other site 94122003596 G3 box; other site 94122003597 Switch II region; other site 94122003598 G4 box; other site 94122003599 G5 box; other site 94122003600 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 94122003601 Translation-initiation factor 2; Region: IF-2; pfam11987 94122003602 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 94122003603 Ribosome-binding factor A; Region: RBFA; cl00542 94122003604 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 94122003605 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 94122003606 RNA binding site [nucleotide binding]; other site 94122003607 active site 94122003608 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 94122003609 ribosomal S15 leader as predicted by Rfam (RF00114), score 69.59 94122003610 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 94122003611 16S/18S rRNA binding site [nucleotide binding]; other site 94122003612 S13e-L30e interaction site [polypeptide binding]; other site 94122003613 25S rRNA binding site [nucleotide binding]; other site 94122003614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122003615 metal binding site [ion binding]; metal-binding site 94122003616 active site 94122003617 I-site; other site 94122003618 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 94122003619 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 94122003620 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 94122003621 RNase E interface [polypeptide binding]; other site 94122003622 trimer interface [polypeptide binding]; other site 94122003623 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 94122003624 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 94122003625 RNase E interface [polypeptide binding]; other site 94122003626 trimer interface [polypeptide binding]; other site 94122003627 active site 94122003628 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 94122003629 putative nucleic acid binding region [nucleotide binding]; other site 94122003630 G-X-X-G motif; other site 94122003631 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 94122003632 RNA binding site [nucleotide binding]; other site 94122003633 domain interface; other site 94122003634 lipoprotein NlpI; Provisional; Region: PRK11189 94122003635 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 94122003636 binding surface 94122003637 TPR motif; other site 94122003638 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 94122003639 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 94122003640 G1 box; other site 94122003641 putative GEF interaction site [polypeptide binding]; other site 94122003642 GTP/Mg2+ binding site [chemical binding]; other site 94122003643 Switch I region; other site 94122003644 G2 box; other site 94122003645 G3 box; other site 94122003646 Switch II region; other site 94122003647 G4 box; other site 94122003648 G5 box; other site 94122003649 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 94122003650 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 94122003651 active site 94122003652 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 94122003653 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 94122003654 Nucleoside recognition; Region: Gate; cl00486 94122003655 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 94122003656 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 94122003657 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 94122003658 intersubunit interface [polypeptide binding]; other site 94122003659 active site 94122003660 catalytic residue [active] 94122003661 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 94122003662 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 94122003663 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 94122003664 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 94122003665 Sulfatase; Region: Sulfatase; cl10460 94122003666 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 94122003667 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 94122003668 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 94122003669 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 94122003670 phosphoserine phosphatase SerB; Region: serB; TIGR00338 94122003671 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 94122003672 motif II; other site 94122003673 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 94122003674 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122003675 PilZ domain; Region: PilZ; cl01260 94122003676 PilZ domain; Region: PilZ; cl01260 94122003677 DNA repair protein RadA; Provisional; Region: PRK11823 94122003678 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 94122003679 Walker A motif/ATP binding site; other site 94122003680 ATP binding site [chemical binding]; other site 94122003681 Walker B motif; other site 94122003682 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 94122003683 PilZ domain; Region: PilZ; cl01260 94122003684 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 94122003685 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 94122003686 active site 94122003687 phosphorylation site [posttranslational modification] 94122003688 intermolecular recognition site; other site 94122003689 dimerization interface [polypeptide binding]; other site 94122003690 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 94122003691 DNA binding site [nucleotide binding] 94122003692 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 94122003693 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 94122003694 putative ligand binding site [chemical binding]; other site 94122003695 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 94122003696 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 94122003697 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 94122003698 ATP binding site [chemical binding]; other site 94122003699 Mg2+ binding site [ion binding]; other site 94122003700 G-X-G motif; other site 94122003701 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 94122003702 active site 94122003703 phosphorylation site [posttranslational modification] 94122003704 intermolecular recognition site; other site 94122003705 dimerization interface [polypeptide binding]; other site 94122003706 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 94122003707 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 94122003708 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 94122003709 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 94122003710 molybdopterin cofactor binding site [chemical binding]; other site 94122003711 substrate binding site [chemical binding]; other site 94122003712 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 94122003713 molybdopterin cofactor binding site; other site 94122003714 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 94122003715 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 94122003716 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 94122003717 FOG: CBS domain [General function prediction only]; Region: COG0517 94122003718 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_24; cd04637 94122003719 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122003720 putative acyl-acceptor binding pocket; other site 94122003721 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122003722 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 94122003723 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 94122003724 putative active site [active] 94122003725 putative metal binding site [ion binding]; other site 94122003726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 94122003727 Nucleoside recognition; Region: Gate; cl00486 94122003728 Peptidase family U32; Region: Peptidase_U32; cl03113 94122003729 Peptidase family U32; Region: Peptidase_U32; cl03113 94122003730 SCP-2 sterol transfer family; Region: SCP2; cl01225 94122003731 ferredoxin; Validated; Region: PRK07118 94122003732 putative protease; Provisional; Region: PRK15452 94122003733 Peptidase family U32; Region: Peptidase_U32; cl03113 94122003734 HDOD domain; Region: HDOD; pfam08668 94122003735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122003736 metal binding site [ion binding]; metal-binding site 94122003737 active site 94122003738 I-site; other site 94122003739 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 94122003740 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 94122003741 active site 94122003742 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 94122003743 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 94122003744 GDP-binding site [chemical binding]; other site 94122003745 ACT binding site; other site 94122003746 IMP binding site; other site 94122003747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122003748 Helix-turn-helix domains; Region: HTH; cl00088 94122003749 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 94122003750 dimerization interface [polypeptide binding]; other site 94122003751 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122003752 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 94122003753 substrate binding pocket [chemical binding]; other site 94122003754 membrane-bound complex binding site; other site 94122003755 hinge residues; other site 94122003756 OsmC-like protein; Region: OsmC; cl00767 94122003757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122003758 Helix-turn-helix domains; Region: HTH; cl00088 94122003759 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122003760 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 94122003761 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 94122003762 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 94122003763 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122003764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122003765 Zn2+ binding site [ion binding]; other site 94122003766 Mg2+ binding site [ion binding]; other site 94122003767 LabA_like proteins; Region: LabA; cd10911 94122003768 putative metal binding site [ion binding]; other site 94122003769 Cupin domain; Region: Cupin_2; cl09118 94122003770 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122003771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122003772 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 94122003773 putative substrate translocation pore; other site 94122003774 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122003775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122003776 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 94122003777 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 94122003778 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 94122003779 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122003780 substrate binding pocket [chemical binding]; other site 94122003781 membrane-bound complex binding site; other site 94122003782 hinge residues; other site 94122003783 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 94122003784 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 94122003785 active site 94122003786 metal binding site [ion binding]; metal-binding site 94122003787 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 94122003788 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 94122003789 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 94122003790 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 94122003791 catalytic residues [active] 94122003792 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122003793 transcriptional regulator; Provisional; Region: PRK10632 94122003794 Helix-turn-helix domains; Region: HTH; cl00088 94122003795 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 94122003796 putative effector binding pocket; other site 94122003797 dimerization interface [polypeptide binding]; other site 94122003798 Domain of unknown function (DUF389); Region: DUF389; cl00781 94122003799 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 94122003800 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 94122003801 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 94122003802 ABC transporter; Region: ABC_tran_2; pfam12848 94122003803 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 94122003804 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 94122003805 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 94122003806 dimer interface [polypeptide binding]; other site 94122003807 active site 94122003808 glycine-pyridoxal phosphate binding site [chemical binding]; other site 94122003809 folate binding site [chemical binding]; other site 94122003810 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 94122003811 ATP cone domain; Region: ATP-cone; pfam03477 94122003812 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 94122003813 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 94122003814 catalytic motif [active] 94122003815 Zn binding site [ion binding]; other site 94122003816 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 94122003817 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 94122003818 Lumazine binding domain; Region: Lum_binding; pfam00677 94122003819 Lumazine binding domain; Region: Lum_binding; pfam00677 94122003820 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 94122003821 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 94122003822 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 94122003823 dimerization interface [polypeptide binding]; other site 94122003824 active site 94122003825 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 94122003826 homopentamer interface [polypeptide binding]; other site 94122003827 active site 94122003828 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 94122003829 putative RNA binding site [nucleotide binding]; other site 94122003830 thiamine monophosphate kinase; Provisional; Region: PRK05731 94122003831 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 94122003832 ATP binding site [chemical binding]; other site 94122003833 dimerization interface [polypeptide binding]; other site 94122003834 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 94122003835 tetramer interfaces [polypeptide binding]; other site 94122003836 binuclear metal-binding site [ion binding]; other site 94122003837 universal stress protein UspE; Provisional; Region: PRK11175 94122003838 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 94122003839 Ligand Binding Site [chemical binding]; other site 94122003840 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 94122003841 Ligand Binding Site [chemical binding]; other site 94122003842 recombination and repair protein; Provisional; Region: PRK10869 94122003843 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 94122003844 Walker A/P-loop; other site 94122003845 ATP binding site [chemical binding]; other site 94122003846 Q-loop/lid; other site 94122003847 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 94122003848 ABC transporter signature motif; other site 94122003849 Walker B; other site 94122003850 D-loop; other site 94122003851 H-loop/switch region; other site 94122003852 Membrane transport protein; Region: Mem_trans; cl09117 94122003853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122003854 Helix-turn-helix domains; Region: HTH; cl00088 94122003855 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 94122003856 putative effector binding pocket; other site 94122003857 dimerization interface [polypeptide binding]; other site 94122003858 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 94122003859 Protein of unknown function (DUF416); Region: DUF416; cl01166 94122003860 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 94122003861 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 94122003862 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 94122003863 dimerization interface [polypeptide binding]; other site 94122003864 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 94122003865 dimer interface [polypeptide binding]; other site 94122003866 phosphorylation site [posttranslational modification] 94122003867 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 94122003868 ATP binding site [chemical binding]; other site 94122003869 Mg2+ binding site [ion binding]; other site 94122003870 G-X-G motif; other site 94122003871 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 94122003872 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 94122003873 active site 94122003874 phosphorylation site [posttranslational modification] 94122003875 intermolecular recognition site; other site 94122003876 dimerization interface [polypeptide binding]; other site 94122003877 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 94122003878 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 94122003879 TRAM domain; Region: TRAM; cl01282 94122003880 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 94122003881 S-adenosylmethionine binding site [chemical binding]; other site 94122003882 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 94122003883 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122003884 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 94122003885 synthetase active site [active] 94122003886 NTP binding site [chemical binding]; other site 94122003887 metal binding site [ion binding]; metal-binding site 94122003888 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 94122003889 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 94122003890 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 94122003891 Winged helix-turn helix; Region: HTH_29; pfam13551 94122003892 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 94122003893 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 94122003894 homodimer interface [polypeptide binding]; other site 94122003895 metal binding site [ion binding]; metal-binding site 94122003896 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 94122003897 homodimer interface [polypeptide binding]; other site 94122003898 active site 94122003899 putative chemical substrate binding site [chemical binding]; other site 94122003900 metal binding site [ion binding]; metal-binding site 94122003901 CTP synthetase; Validated; Region: pyrG; PRK05380 94122003902 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 94122003903 Catalytic site [active] 94122003904 active site 94122003905 UTP binding site [chemical binding]; other site 94122003906 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 94122003907 active site 94122003908 putative oxyanion hole; other site 94122003909 catalytic triad [active] 94122003910 enolase; Provisional; Region: eno; PRK00077 94122003911 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 94122003912 dimer interface [polypeptide binding]; other site 94122003913 metal binding site [ion binding]; metal-binding site 94122003914 substrate binding pocket [chemical binding]; other site 94122003915 Septum formation initiator; Region: DivIC; cl11433 94122003916 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 94122003917 substrate binding site; other site 94122003918 dimer interface; other site 94122003919 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 94122003920 homotrimer interaction site [polypeptide binding]; other site 94122003921 zinc binding site [ion binding]; other site 94122003922 CDP-binding sites; other site 94122003923 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 94122003924 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 94122003925 Permutation of conserved domain; other site 94122003926 active site 94122003927 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 94122003928 Survival protein SurE; Region: SurE; cl00448 94122003929 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 94122003930 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 94122003931 S-adenosylmethionine binding site [chemical binding]; other site 94122003932 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 94122003933 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122003934 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 94122003935 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 94122003936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122003937 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 94122003938 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 94122003939 DNA binding residues [nucleotide binding] 94122003940 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 94122003941 MutS domain I; Region: MutS_I; pfam01624 94122003942 MutS domain II; Region: MutS_II; pfam05188 94122003943 MutS family domain IV; Region: MutS_IV; pfam05190 94122003944 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 94122003945 Walker A/P-loop; other site 94122003946 ATP binding site [chemical binding]; other site 94122003947 Q-loop/lid; other site 94122003948 ABC transporter signature motif; other site 94122003949 Walker B; other site 94122003950 D-loop; other site 94122003951 H-loop/switch region; other site 94122003952 recombinase A; Provisional; Region: recA; PRK09354 94122003953 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 94122003954 hexamer interface [polypeptide binding]; other site 94122003955 Walker A motif; other site 94122003956 ATP binding site [chemical binding]; other site 94122003957 Walker B motif; other site 94122003958 RecX family; Region: RecX; cl00936 94122003959 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 94122003960 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 94122003961 motif 1; other site 94122003962 active site 94122003963 motif 2; other site 94122003964 motif 3; other site 94122003965 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 94122003966 DHHA1 domain; Region: DHHA1; pfam02272 94122003967 aspartate kinase; Reviewed; Region: PRK06635 94122003968 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 94122003969 putative nucleotide binding site [chemical binding]; other site 94122003970 putative catalytic residues [active] 94122003971 putative Mg ion binding site [ion binding]; other site 94122003972 putative aspartate binding site [chemical binding]; other site 94122003973 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 94122003974 putative allosteric regulatory residue; other site 94122003975 Global regulator protein family; Region: CsrA; cl00670 94122003976 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 94122003977 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 94122003978 HIGH motif; other site 94122003979 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 94122003980 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 94122003981 active site 94122003982 KMSKS motif; other site 94122003983 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 94122003984 tRNA binding surface [nucleotide binding]; other site 94122003985 anticodon binding site; other site 94122003986 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 94122003987 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 94122003988 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 94122003989 30S subunit binding site; other site 94122003990 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 94122003991 Cytochrome C'; Region: Cytochrom_C_2; cl01610 94122003992 Helix-turn-helix domains; Region: HTH; cl00088 94122003993 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122003994 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 94122003995 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 94122003996 putative catalytic residues [active] 94122003997 putative nucleotide binding site [chemical binding]; other site 94122003998 putative aspartate binding site [chemical binding]; other site 94122003999 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 94122004000 dimer interface [polypeptide binding]; other site 94122004001 putative threonine allosteric regulatory site; other site 94122004002 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 94122004003 putative threonine allosteric regulatory site; other site 94122004004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004005 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 94122004006 homoserine kinase; Provisional; Region: PRK01212 94122004007 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 94122004008 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 94122004009 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 94122004010 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 94122004011 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122004012 catalytic residue [active] 94122004013 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 94122004014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122004015 substrate binding pocket [chemical binding]; other site 94122004016 membrane-bound complex binding site; other site 94122004017 hinge residues; other site 94122004018 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 94122004019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122004020 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 94122004021 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 94122004022 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 94122004023 protein binding site [polypeptide binding]; other site 94122004024 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 94122004025 Domain interface; other site 94122004026 Peptide binding site; other site 94122004027 Active site tetrad [active] 94122004028 OsmC-like protein; Region: OsmC; cl00767 94122004029 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 94122004030 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 94122004031 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122004032 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122004033 PAS domain; Region: PAS_9; pfam13426 94122004034 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 94122004035 putative active site [active] 94122004036 heme pocket [chemical binding]; other site 94122004037 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122004038 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122004039 dimer interface [polypeptide binding]; other site 94122004040 putative CheW interface [polypeptide binding]; other site 94122004041 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 94122004042 30S subunit binding site; other site 94122004043 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 94122004044 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 94122004045 active site 94122004046 phosphorylation site [posttranslational modification] 94122004047 intermolecular recognition site; other site 94122004048 dimerization interface [polypeptide binding]; other site 94122004049 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 94122004050 DNA binding residues [nucleotide binding] 94122004051 dimerization interface [polypeptide binding]; other site 94122004052 Histidine kinase; Region: HisKA_3; pfam07730 94122004053 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 94122004054 Isochorismatase family; Region: Isochorismatase; pfam00857 94122004055 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 94122004056 catalytic triad [active] 94122004057 conserved cis-peptide bond; other site 94122004058 Transcriptional regulator; Region: Transcrip_reg; cl00361 94122004059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122004060 dimer interface [polypeptide binding]; other site 94122004061 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 94122004062 putative CheW interface [polypeptide binding]; other site 94122004063 Protein of unknown function (DUF2375); Region: DUF2375; cl09781 94122004064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122004065 Helix-turn-helix domains; Region: HTH; cl00088 94122004066 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 94122004067 FMN binding site [chemical binding]; other site 94122004068 active site 94122004069 substrate binding site [chemical binding]; other site 94122004070 catalytic residue [active] 94122004071 AAA domain; Region: AAA_32; pfam13654 94122004072 ATP-dependent protease Lon; Provisional; Region: PRK13765 94122004073 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 94122004074 PAS fold; Region: PAS_4; pfam08448 94122004075 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 94122004076 PAS domain; Region: PAS_9; pfam13426 94122004077 putative active site [active] 94122004078 heme pocket [chemical binding]; other site 94122004079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122004080 metal binding site [ion binding]; metal-binding site 94122004081 active site 94122004082 I-site; other site 94122004083 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 94122004084 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 94122004085 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122004086 ATP binding site [chemical binding]; other site 94122004087 Mg++ binding site [ion binding]; other site 94122004088 motif III; other site 94122004089 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 94122004090 nucleotide binding region [chemical binding]; other site 94122004091 ATP-binding site [chemical binding]; other site 94122004092 Protein of unknown function (DUF523); Region: DUF523; cl00733 94122004093 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 94122004094 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 94122004095 DNA binding residues [nucleotide binding] 94122004096 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 94122004097 DNA photolyase; Region: DNA_photolyase; pfam00875 94122004098 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 94122004099 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 94122004100 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 94122004101 short chain dehydrogenase; Provisional; Region: PRK06101 94122004102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004103 NAD(P) binding site [chemical binding]; other site 94122004104 active site 94122004105 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 94122004106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004107 Uncharacterized conserved protein [Function unknown]; Region: COG3496 94122004108 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 94122004109 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 94122004110 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 94122004111 S-adenosylmethionine binding site [chemical binding]; other site 94122004112 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 94122004113 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 94122004114 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 94122004115 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 94122004116 YceI-like domain; Region: YceI; cl01001 94122004117 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 94122004118 adenine DNA glycosylase; Provisional; Region: PRK10880 94122004119 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 94122004120 minor groove reading motif; other site 94122004121 helix-hairpin-helix signature motif; other site 94122004122 substrate binding pocket [chemical binding]; other site 94122004123 active site 94122004124 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 94122004125 DNA binding and oxoG recognition site [nucleotide binding] 94122004126 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 94122004127 S-adenosylmethionine binding site [chemical binding]; other site 94122004128 Protein with unknown function (DUF469); Region: DUF469; cl01237 94122004129 Glutaminase; Region: Glutaminase; cl00907 94122004130 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 94122004131 LysR family transcriptional regulator; Provisional; Region: PRK14997 94122004132 Helix-turn-helix domains; Region: HTH; cl00088 94122004133 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 94122004134 putative effector binding pocket; other site 94122004135 dimerization interface [polypeptide binding]; other site 94122004136 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122004137 HemN family oxidoreductase; Provisional; Region: PRK05660 94122004138 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 94122004139 FeS/SAM binding site; other site 94122004140 HemN C-terminal domain; Region: HemN_C; pfam06969 94122004141 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 94122004142 active site 94122004143 dimerization interface [polypeptide binding]; other site 94122004144 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 94122004145 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 94122004146 YGGT family; Region: YGGT; cl00508 94122004147 YGGT family; Region: YGGT; cl00508 94122004148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004149 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 94122004150 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 94122004151 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 94122004152 catalytic residue [active] 94122004153 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 94122004154 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 94122004155 Walker A motif; other site 94122004156 ATP binding site [chemical binding]; other site 94122004157 Walker B motif; other site 94122004158 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 94122004159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004160 Walker A motif; other site 94122004161 ATP binding site [chemical binding]; other site 94122004162 Walker B motif; other site 94122004163 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 94122004164 catalytic residues [active] 94122004165 dimer interface [polypeptide binding]; other site 94122004166 ferrochelatase; Reviewed; Region: hemH; PRK00035 94122004167 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 94122004168 C-terminal domain interface [polypeptide binding]; other site 94122004169 active site 94122004170 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 94122004171 active site 94122004172 N-terminal domain interface [polypeptide binding]; other site 94122004173 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 94122004174 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 94122004175 translation initiation factor Sui1; Validated; Region: PRK06824 94122004176 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 94122004177 putative rRNA binding site [nucleotide binding]; other site 94122004178 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 94122004179 Predicted membrane protein [Function unknown]; Region: COG2860 94122004180 UPF0126 domain; Region: UPF0126; pfam03458 94122004181 UPF0126 domain; Region: UPF0126; pfam03458 94122004182 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 94122004183 dimer interface [polypeptide binding]; other site 94122004184 catalytic triad [active] 94122004185 peroxidatic and resolving cysteines [active] 94122004186 Conserved TM helix; Region: TM_helix; pfam05552 94122004187 mechanosensitive channel MscS; Provisional; Region: PRK10334 94122004188 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122004189 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122004190 ligand binding site [chemical binding]; other site 94122004191 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 94122004192 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 94122004193 tetramer interface [polypeptide binding]; other site 94122004194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122004195 catalytic residue [active] 94122004196 HDOD domain; Region: HDOD; pfam08668 94122004197 GAF domain; Region: GAF_2; pfam13185 94122004198 GAF domain; Region: GAF; cl15785 94122004199 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 94122004200 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 94122004201 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 94122004202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122004203 metal binding site [ion binding]; metal-binding site 94122004204 active site 94122004205 I-site; other site 94122004206 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 94122004207 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 94122004208 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 94122004209 ParA-like protein; Provisional; Region: PHA02518 94122004210 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 94122004211 P-loop; other site 94122004212 Magnesium ion binding site [ion binding]; other site 94122004213 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122004214 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 94122004215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 94122004216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122004217 Coenzyme A binding pocket [chemical binding]; other site 94122004218 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 94122004219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122004220 Coenzyme A binding pocket [chemical binding]; other site 94122004221 Cupin domain; Region: Cupin_2; cl09118 94122004222 DoxX; Region: DoxX; cl00976 94122004223 Helix-turn-helix domains; Region: HTH; cl00088 94122004224 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 94122004225 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 94122004226 putative dimerization interface [polypeptide binding]; other site 94122004227 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 94122004228 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 94122004229 active site 94122004230 metal binding site [ion binding]; metal-binding site 94122004231 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 94122004232 Domain of unknown function DUF21; Region: DUF21; pfam01595 94122004233 FOG: CBS domain [General function prediction only]; Region: COG0517 94122004234 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 94122004235 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 94122004236 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 94122004237 FeS/SAM binding site; other site 94122004238 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 94122004239 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 94122004240 binding surface 94122004241 TPR motif; other site 94122004242 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 94122004243 binding surface 94122004244 TPR motif; other site 94122004245 cytoskeletal protein RodZ; Provisional; Region: PRK10856 94122004246 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 94122004247 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 94122004248 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 94122004249 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 94122004250 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 94122004251 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 94122004252 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 94122004253 dimer interface [polypeptide binding]; other site 94122004254 motif 1; other site 94122004255 active site 94122004256 motif 2; other site 94122004257 motif 3; other site 94122004258 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 94122004259 anticodon binding site; other site 94122004260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 94122004261 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 94122004262 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 94122004263 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 94122004264 Trp docking motif [polypeptide binding]; other site 94122004265 active site 94122004266 GTP-binding protein Der; Reviewed; Region: PRK00093 94122004267 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 94122004268 G1 box; other site 94122004269 GTP/Mg2+ binding site [chemical binding]; other site 94122004270 Switch I region; other site 94122004271 G2 box; other site 94122004272 Switch II region; other site 94122004273 G3 box; other site 94122004274 G4 box; other site 94122004275 G5 box; other site 94122004276 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 94122004277 G1 box; other site 94122004278 GTP/Mg2+ binding site [chemical binding]; other site 94122004279 Switch I region; other site 94122004280 G2 box; other site 94122004281 G3 box; other site 94122004282 Switch II region; other site 94122004283 G4 box; other site 94122004284 G5 box; other site 94122004285 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 94122004286 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 94122004287 generic binding surface II; other site 94122004288 generic binding surface I; other site 94122004289 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 94122004290 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 94122004291 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 94122004292 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 94122004293 active site 94122004294 GMP synthase; Reviewed; Region: guaA; PRK00074 94122004295 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 94122004296 AMP/PPi binding site [chemical binding]; other site 94122004297 candidate oxyanion hole; other site 94122004298 catalytic triad [active] 94122004299 potential glutamine specificity residues [chemical binding]; other site 94122004300 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 94122004301 ATP Binding subdomain [chemical binding]; other site 94122004302 Ligand Binding sites [chemical binding]; other site 94122004303 Dimerization subdomain; other site 94122004304 DGC domain; Region: DGC; cl01742 94122004305 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 94122004306 nucleoside/Zn binding site; other site 94122004307 dimer interface [polypeptide binding]; other site 94122004308 catalytic motif [active] 94122004309 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 94122004310 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 94122004311 substrate binding pocket [chemical binding]; other site 94122004312 membrane-bound complex binding site; other site 94122004313 hinge residues; other site 94122004314 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 94122004315 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122004316 catalytic residue [active] 94122004317 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 94122004318 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 94122004319 dimerization interface [polypeptide binding]; other site 94122004320 ATP binding site [chemical binding]; other site 94122004321 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 94122004322 dimerization interface [polypeptide binding]; other site 94122004323 ATP binding site [chemical binding]; other site 94122004324 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 94122004325 putative active site [active] 94122004326 catalytic triad [active] 94122004327 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 94122004328 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 94122004329 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 94122004330 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 94122004331 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 94122004332 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 94122004333 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 94122004334 active site 94122004335 DNA binding site [nucleotide binding] 94122004336 Int/Topo IB signature motif; other site 94122004337 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 94122004338 Predicted transcriptional regulator [Transcription]; Region: COG2944 94122004339 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 94122004340 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 94122004341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004343 AAA domain; Region: AAA_28; pfam13521 94122004344 G1 box; other site 94122004345 GTP/Mg2+ binding site [chemical binding]; other site 94122004346 Integrase core domain; Region: rve; cl01316 94122004347 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 94122004348 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 94122004349 Walker A motif; other site 94122004350 ATP binding site [chemical binding]; other site 94122004351 Walker B motif; other site 94122004352 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 94122004353 MPN+ (JAMM) motif; other site 94122004354 Zinc-binding site [ion binding]; other site 94122004355 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 94122004356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004357 Family description; Region: UvrD_C_2; cl15862 94122004358 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 94122004359 active site 94122004360 NTP binding site [chemical binding]; other site 94122004361 metal binding triad [ion binding]; metal-binding site 94122004362 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 94122004363 active site 94122004364 nucleophile elbow; other site 94122004365 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 94122004366 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 94122004367 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 94122004368 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122004369 Replication initiator protein A; Region: RPA; cl02339 94122004370 ParA-like protein; Provisional; Region: PHA02518 94122004371 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 94122004372 P-loop; other site 94122004373 Magnesium ion binding site [ion binding]; other site 94122004374 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 94122004375 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 94122004376 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 94122004377 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 94122004378 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 94122004379 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 94122004380 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 94122004381 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 94122004382 putative substrate translocation pore; other site 94122004383 Helix-turn-helix domains; Region: HTH; cl00088 94122004384 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 94122004385 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 94122004386 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 94122004387 Helix-turn-helix domains; Region: HTH; cl00088 94122004388 Bacterial transcriptional regulator; Region: IclR; pfam01614 94122004389 Domain of unknown function (DUF336); Region: DUF336; cl01249 94122004390 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 94122004391 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 94122004392 putative substrate translocation pore; other site 94122004393 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 94122004394 Helix-turn-helix domains; Region: HTH; cl00088 94122004395 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 94122004396 dimerization interface [polypeptide binding]; other site 94122004397 substrate binding pocket [chemical binding]; other site 94122004398 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 94122004399 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 94122004400 Walker A motif; other site 94122004401 ATP binding site [chemical binding]; other site 94122004402 Walker B motif; other site 94122004403 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 94122004404 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 94122004405 ATP binding site [chemical binding]; other site 94122004406 Walker A motif; other site 94122004407 hexamer interface [polypeptide binding]; other site 94122004408 Walker B motif; other site 94122004409 TrbC/VIRB2 family; Region: TrbC; cl01583 94122004410 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 94122004411 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 94122004412 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 94122004413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004414 Walker A motif; other site 94122004415 ATP binding site [chemical binding]; other site 94122004416 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 94122004417 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 94122004418 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 94122004419 conjugal transfer protein TrbL; Provisional; Region: PRK13875 94122004420 VirB8 protein; Region: VirB8; cl01500 94122004421 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 94122004422 VirB7 interaction site; other site 94122004423 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 94122004424 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 94122004425 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 94122004426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122004427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122004428 dimer interface [polypeptide binding]; other site 94122004429 putative CheW interface [polypeptide binding]; other site 94122004430 Protein of unknown function (DUF465); Region: DUF465; cl01070 94122004431 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122004432 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122004433 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 94122004434 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 94122004435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122004436 Helix-turn-helix domains; Region: HTH; cl00088 94122004437 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 94122004438 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 94122004439 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 94122004440 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 94122004441 binding surface 94122004442 TPR motif; other site 94122004443 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 94122004444 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 94122004445 NAD(P) binding site [chemical binding]; other site 94122004446 homodimer interface [polypeptide binding]; other site 94122004447 substrate binding site [chemical binding]; other site 94122004448 active site 94122004449 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 94122004450 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 94122004451 inhibitor-cofactor binding pocket; inhibition site 94122004452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122004453 catalytic residue [active] 94122004454 pseudaminic acid synthase; Region: PseI; TIGR03586 94122004455 NeuB family; Region: NeuB; cl00496 94122004456 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 94122004457 NeuB binding interface [polypeptide binding]; other site 94122004458 putative substrate binding site [chemical binding]; other site 94122004459 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122004460 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 94122004461 S-adenosylmethionine binding site [chemical binding]; other site 94122004462 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 94122004463 WbqC-like protein family; Region: WbqC; pfam08889 94122004464 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 94122004465 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 94122004466 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122004467 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122004468 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 94122004469 ligand binding site; other site 94122004470 tetramer interface; other site 94122004471 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 94122004472 Integrase core domain; Region: rve_3; cl15866 94122004473 LPP20 lipoprotein; Region: LPP20; cl15824 94122004474 FlgN protein; Region: FlgN; cl09176 94122004475 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 94122004476 SAF-like; Region: SAF_2; pfam13144 94122004477 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 94122004478 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 94122004479 Response regulator receiver domain; Region: Response_reg; pfam00072 94122004480 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 94122004481 active site 94122004482 phosphorylation site [posttranslational modification] 94122004483 intermolecular recognition site; other site 94122004484 dimerization interface [polypeptide binding]; other site 94122004485 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 94122004486 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 94122004487 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 94122004488 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 94122004489 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 94122004490 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 94122004491 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 94122004492 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 94122004493 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 94122004494 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 94122004495 FlgD Ig-like domain; Region: FlgD_ig; cl15790 94122004496 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 94122004497 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 94122004498 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 94122004499 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 94122004500 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 94122004501 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 94122004502 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 94122004503 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 94122004504 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 94122004505 Flagellar L-ring protein; Region: FlgH; cl00905 94122004506 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 94122004507 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 94122004508 Rod binding protein; Region: Rod-binding; cl01626 94122004509 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 94122004510 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 94122004511 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 94122004512 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 94122004513 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 94122004514 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 94122004515 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 94122004516 flagellin; Provisional; Region: PRK12802 94122004517 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 94122004518 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 94122004519 flagellin; Provisional; Region: PRK12802 94122004520 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 94122004521 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 94122004522 FlaG protein; Region: FlaG; cl00591 94122004523 flagellar capping protein; Reviewed; Region: fliD; PRK08032 94122004524 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 94122004525 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 94122004526 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 94122004527 Flagellar protein FliS; Region: FliS; cl00654 94122004528 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122004529 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 94122004530 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 94122004531 Walker A motif; other site 94122004532 ATP binding site [chemical binding]; other site 94122004533 Walker B motif; other site 94122004534 arginine finger; other site 94122004535 Helix-turn-helix domains; Region: HTH; cl00088 94122004536 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 94122004537 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 94122004538 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 94122004539 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 94122004540 ATP binding site [chemical binding]; other site 94122004541 Mg2+ binding site [ion binding]; other site 94122004542 G-X-G motif; other site 94122004543 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122004544 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 94122004545 active site 94122004546 phosphorylation site [posttranslational modification] 94122004547 intermolecular recognition site; other site 94122004548 dimerization interface [polypeptide binding]; other site 94122004549 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 94122004550 Walker A motif; other site 94122004551 ATP binding site [chemical binding]; other site 94122004552 Walker B motif; other site 94122004553 arginine finger; other site 94122004554 Helix-turn-helix domains; Region: HTH; cl00088 94122004555 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 94122004556 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 94122004557 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 94122004558 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 94122004559 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 94122004560 MgtE intracellular N domain; Region: MgtE_N; cl15244 94122004561 FliG C-terminal domain; Region: FliG_C; pfam01706 94122004562 flagellar assembly protein H; Validated; Region: fliH; PRK05687 94122004563 Flagellar assembly protein FliH; Region: FliH; pfam02108 94122004564 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 94122004565 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 94122004566 Walker A motif/ATP binding site; other site 94122004567 Walker B motif; other site 94122004568 Flagellar FliJ protein; Region: FliJ; pfam02050 94122004569 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 94122004570 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 94122004571 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 94122004572 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 94122004573 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 94122004574 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 94122004575 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 94122004576 FliP family; Region: FliP; cl00593 94122004577 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 94122004578 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 94122004579 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 94122004580 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 94122004581 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 94122004582 FHIPEP family; Region: FHIPEP; pfam00771 94122004583 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 94122004584 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004585 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122004586 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 94122004587 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 94122004588 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 94122004589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122004590 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 94122004591 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 94122004592 DNA binding residues [nucleotide binding] 94122004593 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 94122004594 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 94122004595 active site 94122004596 phosphorylation site [posttranslational modification] 94122004597 intermolecular recognition site; other site 94122004598 dimerization interface [polypeptide binding]; other site 94122004599 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 94122004600 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 94122004601 putative binding surface; other site 94122004602 active site 94122004603 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 94122004604 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 94122004605 ATP binding site [chemical binding]; other site 94122004606 Mg2+ binding site [ion binding]; other site 94122004607 G-X-G motif; other site 94122004608 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 94122004609 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 94122004610 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 94122004611 active site 94122004612 phosphorylation site [posttranslational modification] 94122004613 intermolecular recognition site; other site 94122004614 CheB methylesterase; Region: CheB_methylest; pfam01339 94122004615 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 94122004616 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 94122004617 P-loop; other site 94122004618 Magnesium ion binding site [ion binding]; other site 94122004619 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 94122004620 Magnesium ion binding site [ion binding]; other site 94122004621 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; cd00588 94122004622 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 94122004623 putative CheA interaction surface; other site 94122004624 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 94122004625 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 94122004626 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 94122004627 VacJ like lipoprotein; Region: VacJ; cl01073 94122004628 Response regulator receiver domain; Region: Response_reg; pfam00072 94122004629 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 94122004630 active site 94122004631 phosphorylation site [posttranslational modification] 94122004632 intermolecular recognition site; other site 94122004633 dimerization interface [polypeptide binding]; other site 94122004634 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 94122004635 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 94122004636 putative substrate translocation pore; other site 94122004637 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 94122004638 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 94122004639 transcriptional activator RfaH; Region: RfaH; TIGR01955 94122004640 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 94122004641 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 94122004642 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 94122004643 SLBB domain; Region: SLBB; pfam10531 94122004644 polysaccharide export protein Wza; Provisional; Region: PRK15078 94122004645 SLBB domain; Region: SLBB; pfam10531 94122004646 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 94122004647 Chain length determinant protein; Region: Wzz; cl15801 94122004648 Bacterial sugar transferase; Region: Bac_transf; cl00939 94122004649 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 94122004650 active site 94122004651 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 94122004652 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 94122004653 NAD binding site [chemical binding]; other site 94122004654 substrate binding site [chemical binding]; other site 94122004655 homodimer interface [polypeptide binding]; other site 94122004656 active site 94122004657 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 94122004658 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 94122004659 substrate binding site; other site 94122004660 tetramer interface; other site 94122004661 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 94122004662 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 94122004663 NADP binding site [chemical binding]; other site 94122004664 active site 94122004665 putative substrate binding site [chemical binding]; other site 94122004666 Cupin domain; Region: Cupin_2; cl09118 94122004667 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 94122004668 GDP-Fucose binding site [chemical binding]; other site 94122004669 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 94122004670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004671 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 94122004672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004673 HutD; Region: HutD; cl01532 94122004674 NlpE N-terminal domain; Region: NlpE; cl01138 94122004675 GAF domain; Region: GAF_2; pfam13185 94122004676 GAF domain; Region: GAF; cl15785 94122004677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122004678 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 94122004679 ATP binding site [chemical binding]; other site 94122004680 Mg2+ binding site [ion binding]; other site 94122004681 G-X-G motif; other site 94122004682 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 94122004683 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 94122004684 substrate binding site; other site 94122004685 tetramer interface; other site 94122004686 Cupin domain; Region: Cupin_2; cl09118 94122004687 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 94122004688 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 94122004689 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 94122004690 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 94122004691 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 94122004692 nucleophile elbow; other site 94122004693 prolyl-tRNA synthetase; Provisional; Region: PRK09194 94122004694 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 94122004695 dimer interface [polypeptide binding]; other site 94122004696 motif 1; other site 94122004697 active site 94122004698 motif 2; other site 94122004699 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 94122004700 putative deacylase active site [active] 94122004701 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 94122004702 active site 94122004703 motif 3; other site 94122004704 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 94122004705 anticodon binding site; other site 94122004706 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 94122004707 putative CoA binding site [chemical binding]; other site 94122004708 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 94122004709 trimer interface [polypeptide binding]; other site 94122004710 active site 94122004711 substrate binding site [chemical binding]; other site 94122004712 CoA binding site [chemical binding]; other site 94122004713 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 94122004714 homodimer interaction site [polypeptide binding]; other site 94122004715 cofactor binding site; other site 94122004716 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 94122004717 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 94122004718 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 94122004719 active site 94122004720 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 94122004721 active site 94122004722 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 94122004723 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 94122004724 active site 94122004725 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 94122004726 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 94122004727 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 94122004728 Ligand binding site [chemical binding]; other site 94122004729 Electron transfer flavoprotein domain; Region: ETF; pfam01012 94122004730 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 94122004731 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 94122004732 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 94122004733 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 94122004734 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 94122004735 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 94122004736 active site 94122004737 Zn binding site [ion binding]; other site 94122004738 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 94122004739 thymidine kinase; Provisional; Region: PRK04296 94122004740 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 94122004741 Transglycosylase; Region: Transgly; cl07896 94122004742 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122004743 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 94122004744 active site 94122004745 phosphorylation site [posttranslational modification] 94122004746 intermolecular recognition site; other site 94122004747 dimerization interface [polypeptide binding]; other site 94122004748 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 94122004749 Walker A motif; other site 94122004750 ATP binding site [chemical binding]; other site 94122004751 Walker B motif; other site 94122004752 arginine finger; other site 94122004753 Helix-turn-helix domains; Region: HTH; cl00088 94122004754 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 94122004755 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 94122004756 dimer interface [polypeptide binding]; other site 94122004757 phosphorylation site [posttranslational modification] 94122004758 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 94122004759 ATP binding site [chemical binding]; other site 94122004760 Mg2+ binding site [ion binding]; other site 94122004761 G-X-G motif; other site 94122004762 DctM-like transporters; Region: DctM; pfam06808 94122004763 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122004764 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 94122004765 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 94122004766 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 94122004767 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 94122004768 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 94122004769 active site 94122004770 HIGH motif; other site 94122004771 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 94122004772 active site 94122004773 KMSKS motif; other site 94122004774 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 94122004775 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122004776 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 94122004777 Walker A/P-loop; other site 94122004778 ATP binding site [chemical binding]; other site 94122004779 Q-loop/lid; other site 94122004780 ABC transporter signature motif; other site 94122004781 Walker B; other site 94122004782 D-loop; other site 94122004783 H-loop/switch region; other site 94122004784 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 94122004785 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 94122004786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122004787 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 94122004788 AlkA N-terminal domain; Region: AlkA_N; cl05528 94122004789 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 94122004790 minor groove reading motif; other site 94122004791 helix-hairpin-helix signature motif; other site 94122004792 substrate binding pocket [chemical binding]; other site 94122004793 active site 94122004794 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 94122004795 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 94122004796 DNA binding site [nucleotide binding] 94122004797 active site 94122004798 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 94122004799 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 94122004800 ATP binding site [chemical binding]; other site 94122004801 Mg++ binding site [ion binding]; other site 94122004802 motif III; other site 94122004803 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 94122004804 nucleotide binding region [chemical binding]; other site 94122004805 ATP-binding site [chemical binding]; other site 94122004806 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 94122004807 active site 94122004808 catalytic residues [active] 94122004809 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 94122004810 PLD-like domain; Region: PLDc_2; pfam13091 94122004811 putative active site [active] 94122004812 catalytic site [active] 94122004813 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 94122004814 PLD-like domain; Region: PLDc_2; pfam13091 94122004815 putative active site [active] 94122004816 catalytic site [active] 94122004817 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 94122004818 Response regulator receiver domain; Region: Response_reg; pfam00072 94122004819 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 94122004820 active site 94122004821 phosphorylation site [posttranslational modification] 94122004822 intermolecular recognition site; other site 94122004823 dimerization interface [polypeptide binding]; other site 94122004824 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122004825 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 94122004826 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 94122004827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004828 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 94122004829 active site 94122004830 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 94122004831 catalytic residues [active] 94122004832 Protein of unknown function, DUF479; Region: DUF479; cl01203 94122004833 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 94122004834 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 94122004835 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 94122004836 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 94122004837 Preprotein translocase subunit; Region: YajC; cl00806 94122004838 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 94122004839 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 94122004840 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 94122004841 Protein export membrane protein; Region: SecD_SecF; cl14618 94122004842 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 94122004843 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 94122004844 Protein export membrane protein; Region: SecD_SecF; cl14618 94122004845 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 94122004846 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 94122004847 active site residue [active] 94122004848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004849 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 94122004850 YaeQ protein; Region: YaeQ; cl01913 94122004851 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122004852 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 94122004853 active site 94122004854 catalytic residues [active] 94122004855 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 94122004856 PA/subtilisin-like domain interface [polypeptide binding]; other site 94122004857 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122004858 catalytic residues [active] 94122004859 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 94122004860 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 94122004861 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 94122004862 active site residue [active] 94122004863 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 94122004864 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122004865 Protein export membrane protein; Region: SecD_SecF; cl14618 94122004866 Protein export membrane protein; Region: SecD_SecF; cl14618 94122004867 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122004868 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 94122004869 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 94122004870 Protein of unknown function (DUF541); Region: SIMPL; cl01077 94122004871 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 94122004872 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 94122004873 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 94122004874 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 94122004875 Na binding site [ion binding]; other site 94122004876 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 94122004877 RNA polymerase sigma factor; Provisional; Region: PRK12517 94122004878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122004879 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 94122004880 DNA binding residues [nucleotide binding] 94122004881 Oxygen tolerance; Region: BatD; pfam13584 94122004882 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 94122004883 metal ion-dependent adhesion site (MIDAS); other site 94122004884 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 94122004885 binding surface 94122004886 TPR motif; other site 94122004887 Tetratricopeptide repeat; Region: TPR_16; pfam13432 94122004888 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 94122004889 metal ion-dependent adhesion site (MIDAS); other site 94122004890 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 94122004891 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 94122004892 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 94122004893 MoxR-like ATPases [General function prediction only]; Region: COG0714 94122004894 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 94122004895 Walker A motif; other site 94122004896 ATP binding site [chemical binding]; other site 94122004897 Walker B motif; other site 94122004898 arginine finger; other site 94122004899 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 94122004900 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 94122004901 dimer interface [polypeptide binding]; other site 94122004902 active site 94122004903 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 94122004904 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 94122004905 substrate binding site [chemical binding]; other site 94122004906 oxyanion hole (OAH) forming residues; other site 94122004907 trimer interface [polypeptide binding]; other site 94122004908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004909 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 94122004910 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 94122004911 Two component regulator propeller; Region: Reg_prop; pfam07494 94122004912 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 94122004913 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 94122004914 PAS fold; Region: PAS_3; pfam08447 94122004915 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 94122004916 PAS domain; Region: PAS_9; pfam13426 94122004917 putative active site [active] 94122004918 heme pocket [chemical binding]; other site 94122004919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122004920 metal binding site [ion binding]; metal-binding site 94122004921 active site 94122004922 I-site; other site 94122004923 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 94122004924 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 94122004925 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122004926 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122004927 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122004928 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 94122004929 catalytic core [active] 94122004930 hypothetical protein; Provisional; Region: PRK04946 94122004931 Smr domain; Region: Smr; cl02619 94122004932 HemK family putative methylases; Region: hemK_fam; TIGR00536 94122004933 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 94122004934 S-adenosylmethionine binding site [chemical binding]; other site 94122004935 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 94122004936 Tetramer interface [polypeptide binding]; other site 94122004937 active site 94122004938 FMN-binding site [chemical binding]; other site 94122004939 MFS_1 like family; Region: MFS_1_like; pfam12832 94122004940 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 94122004941 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 94122004942 YfcL protein; Region: YfcL; pfam08891 94122004943 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 94122004944 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 94122004945 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 94122004946 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 94122004947 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 94122004948 dimer interface [polypeptide binding]; other site 94122004949 active site 94122004950 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 94122004951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004952 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 94122004953 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 94122004954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122004955 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122004956 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 94122004957 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 94122004958 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 94122004959 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 94122004960 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 94122004961 dimerization interface 3.5A [polypeptide binding]; other site 94122004962 active site 94122004963 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 94122004964 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 94122004965 cell division protein DedD; Provisional; Region: PRK11633 94122004966 Sporulation related domain; Region: SPOR; cl10051 94122004967 Colicin V production protein; Region: Colicin_V; cl00567 94122004968 amidophosphoribosyltransferase; Provisional; Region: PRK09246 94122004969 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 94122004970 active site 94122004971 tetramer interface [polypeptide binding]; other site 94122004972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122004973 active site 94122004974 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 94122004975 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 94122004976 DNA topoisomerase III; Provisional; Region: PRK07726 94122004977 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 94122004978 active site 94122004979 putative interdomain interaction site [polypeptide binding]; other site 94122004980 putative metal-binding site [ion binding]; other site 94122004981 putative nucleotide binding site [chemical binding]; other site 94122004982 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 94122004983 domain I; other site 94122004984 DNA binding groove [nucleotide binding] 94122004985 phosphate binding site [ion binding]; other site 94122004986 domain II; other site 94122004987 domain III; other site 94122004988 nucleotide binding site [chemical binding]; other site 94122004989 catalytic site [active] 94122004990 domain IV; other site 94122004991 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 94122004992 eyelet of channel; other site 94122004993 trimer interface [polypeptide binding]; other site 94122004994 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 94122004995 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 94122004996 Walker A motif; other site 94122004997 ATP binding site [chemical binding]; other site 94122004998 Walker B motif; other site 94122004999 arginine finger; other site 94122005000 Helix-turn-helix domains; Region: HTH; cl00088 94122005001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005002 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 94122005003 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 94122005004 active sites [active] 94122005005 tetramer interface [polypeptide binding]; other site 94122005006 chaperone protein DnaJ; Provisional; Region: PRK14280 94122005007 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 94122005008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122005009 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 94122005010 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 94122005011 XdhC Rossmann domain; Region: XdhC_C; pfam13478 94122005012 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 94122005013 Ligand binding site; other site 94122005014 metal-binding site 94122005015 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 94122005016 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 94122005017 catalytic loop [active] 94122005018 iron binding site [ion binding]; other site 94122005019 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 94122005020 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 94122005021 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 94122005022 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 94122005023 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 94122005024 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 94122005025 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 94122005026 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 94122005027 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122005028 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122005029 dimer interface [polypeptide binding]; other site 94122005030 putative CheW interface [polypeptide binding]; other site 94122005031 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122005032 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005033 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 94122005034 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 94122005035 putative catalytic site [active] 94122005036 putative phosphate binding site [ion binding]; other site 94122005037 active site 94122005038 metal binding site A [ion binding]; metal-binding site 94122005039 DNA binding site [nucleotide binding] 94122005040 putative AP binding site [nucleotide binding]; other site 94122005041 putative metal binding site B [ion binding]; other site 94122005042 YCII-related domain; Region: YCII; cl00999 94122005043 Intracellular septation protein A; Region: IspA; cl01098 94122005044 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 94122005045 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 94122005046 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 94122005047 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 94122005048 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 94122005049 N-terminal plug; other site 94122005050 ligand-binding site [chemical binding]; other site 94122005051 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 94122005052 IucA / IucC family; Region: IucA_IucC; pfam04183 94122005053 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 94122005054 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 94122005055 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 94122005056 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 94122005057 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 94122005058 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 94122005059 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 94122005060 N-terminal plug; other site 94122005061 ligand-binding site [chemical binding]; other site 94122005062 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 94122005063 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 94122005064 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 94122005065 substrate binding site [chemical binding]; other site 94122005066 active site 94122005067 catalytic residues [active] 94122005068 heterodimer interface [polypeptide binding]; other site 94122005069 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 94122005070 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 94122005071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122005072 catalytic residue [active] 94122005073 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 94122005074 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 94122005075 active site 94122005076 ribulose/triose binding site [chemical binding]; other site 94122005077 phosphate binding site [ion binding]; other site 94122005078 substrate (anthranilate) binding pocket [chemical binding]; other site 94122005079 product (indole) binding pocket [chemical binding]; other site 94122005080 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 94122005081 active site 94122005082 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 94122005083 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 94122005084 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 94122005085 Glutamine amidotransferase class-I; Region: GATase; pfam00117 94122005086 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 94122005087 glutamine binding [chemical binding]; other site 94122005088 catalytic triad [active] 94122005089 anthranilate synthase component I; Provisional; Region: PRK13564 94122005090 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 94122005091 chorismate binding enzyme; Region: Chorismate_bind; cl10555 94122005092 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 94122005093 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 94122005094 ScpA/B protein; Region: ScpA_ScpB; cl00598 94122005095 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 94122005096 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 94122005097 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 94122005098 RNA binding surface [nucleotide binding]; other site 94122005099 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 94122005100 probable active site [active] 94122005101 BNR repeat-like domain; Region: BNR_2; pfam13088 94122005102 Transposase IS200 like; Region: Y1_Tnp; cl00848 94122005103 short chain dehydrogenase; Provisional; Region: PRK08703 94122005104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005105 NAD(P) binding site [chemical binding]; other site 94122005106 active site 94122005107 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 94122005108 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 94122005109 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 94122005110 putative inner membrane peptidase; Provisional; Region: PRK11778 94122005111 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 94122005112 tandem repeat interface [polypeptide binding]; other site 94122005113 oligomer interface [polypeptide binding]; other site 94122005114 active site residues [active] 94122005115 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 94122005116 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 94122005117 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 94122005118 Cytochrome c; Region: Cytochrom_C; cl11414 94122005119 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 94122005120 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 94122005121 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 94122005122 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 94122005123 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 94122005124 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122005125 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 94122005126 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 94122005127 active site 94122005128 catalytic triad [active] 94122005129 oxyanion hole [active] 94122005130 switch loop; other site 94122005131 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 94122005132 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 94122005133 Walker A/P-loop; other site 94122005134 ATP binding site [chemical binding]; other site 94122005135 Q-loop/lid; other site 94122005136 ABC transporter signature motif; other site 94122005137 Walker B; other site 94122005138 D-loop; other site 94122005139 H-loop/switch region; other site 94122005140 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 94122005141 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 94122005142 FtsX-like permease family; Region: FtsX; cl15850 94122005143 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 94122005144 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 94122005145 Catalytic site [active] 94122005146 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 94122005147 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 94122005148 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 94122005149 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 94122005150 putative NAD(P) binding site [chemical binding]; other site 94122005151 putative active site [active] 94122005152 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 94122005153 homooctamer interface [polypeptide binding]; other site 94122005154 active site 94122005155 Domain of unknown function DUF20; Region: UPF0118; pfam01594 94122005156 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 94122005157 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 94122005158 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 94122005159 putative transposase OrfB; Reviewed; Region: PHA02517 94122005160 Integrase core domain; Region: rve; cl01316 94122005161 Integrase core domain; Region: rve_3; cl15866 94122005162 phosphate acetyltransferase; Reviewed; Region: PRK05632 94122005163 DRTGG domain; Region: DRTGG; cl12147 94122005164 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 94122005165 acetate kinase; Region: ackA; TIGR00016 94122005166 Acetokinase family; Region: Acetate_kinase; cl01029 94122005167 Protein of unknown function, DUF412; Region: DUF412; cl01183 94122005168 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 94122005169 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 94122005170 FeS/SAM binding site; other site 94122005171 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 94122005172 Pyruvate formate lyase 1; Region: PFL1; cd01678 94122005173 coenzyme A binding site [chemical binding]; other site 94122005174 active site 94122005175 catalytic residues [active] 94122005176 glycine loop; other site 94122005177 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 94122005178 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122005179 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122005180 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 94122005181 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 94122005182 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 94122005183 gating phenylalanine in ion channel; other site 94122005184 O-methyltransferase; Region: Methyltransf_2; pfam00891 94122005185 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 94122005186 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 94122005187 dimer interface [polypeptide binding]; other site 94122005188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122005189 catalytic residue [active] 94122005190 RDD family; Region: RDD; cl00746 94122005191 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 94122005192 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 94122005193 dimer interface [polypeptide binding]; other site 94122005194 active site 94122005195 CoA binding pocket [chemical binding]; other site 94122005196 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 94122005197 putative ligand binding site [chemical binding]; other site 94122005198 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 94122005199 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 94122005200 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 94122005201 Walker A/P-loop; other site 94122005202 ATP binding site [chemical binding]; other site 94122005203 Q-loop/lid; other site 94122005204 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 94122005205 Q-loop/lid; other site 94122005206 ABC transporter signature motif; other site 94122005207 Walker B; other site 94122005208 D-loop; other site 94122005209 H-loop/switch region; other site 94122005210 cell division protein ZipA; Provisional; Region: PRK03427 94122005211 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 94122005212 FtsZ protein binding site [polypeptide binding]; other site 94122005213 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 94122005214 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 94122005215 nucleotide binding pocket [chemical binding]; other site 94122005216 K-X-D-G motif; other site 94122005217 catalytic site [active] 94122005218 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 94122005219 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 94122005220 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 94122005221 Dimer interface [polypeptide binding]; other site 94122005222 BRCT sequence motif; other site 94122005223 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 94122005224 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 94122005225 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122005226 Zn2+ binding site [ion binding]; other site 94122005227 Mg2+ binding site [ion binding]; other site 94122005228 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 94122005229 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 94122005230 putative NAD(P) binding site [chemical binding]; other site 94122005231 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 94122005232 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 94122005233 catalytic residues [active] 94122005234 hinge region; other site 94122005235 alpha helical domain; other site 94122005236 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 94122005237 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 94122005238 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 94122005239 Na binding site [ion binding]; other site 94122005240 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 94122005241 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 94122005242 ligand binding site [chemical binding]; other site 94122005243 flexible hinge region; other site 94122005244 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 94122005245 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 94122005246 metal binding triad; other site 94122005247 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 94122005248 active site 94122005249 catalytic site [active] 94122005250 substrate binding site [chemical binding]; other site 94122005251 Helix-turn-helix domains; Region: HTH; cl00088 94122005252 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 94122005253 Prostaglandin dehydrogenases; Region: PGDH; cd05288 94122005254 NAD(P) binding site [chemical binding]; other site 94122005255 substrate binding site [chemical binding]; other site 94122005256 dimer interface [polypeptide binding]; other site 94122005257 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 94122005258 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 94122005259 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 94122005260 dimer interface [polypeptide binding]; other site 94122005261 active site 94122005262 CoA binding pocket [chemical binding]; other site 94122005263 Transcriptional regulators [Transcription]; Region: GntR; COG1802 94122005264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122005265 DNA-binding site [nucleotide binding]; DNA binding site 94122005266 FCD domain; Region: FCD; cl11656 94122005267 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 94122005268 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 94122005269 active site 94122005270 motif I; other site 94122005271 motif II; other site 94122005272 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122005273 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 94122005274 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 94122005275 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 94122005276 active site 94122005277 metal binding site [ion binding]; metal-binding site 94122005278 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 94122005279 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 94122005280 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 94122005281 active site 94122005282 Zn binding site [ion binding]; other site 94122005283 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 94122005284 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122005285 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122005286 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005287 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005288 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 94122005289 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 94122005290 GDYXXLXY protein; Region: GDYXXLXY; cl02066 94122005291 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 94122005292 Lamin Tail Domain; Region: LTD; pfam00932 94122005293 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 94122005294 generic binding surface II; other site 94122005295 generic binding surface I; other site 94122005296 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 94122005297 putative active site [active] 94122005298 putative catalytic site [active] 94122005299 putative Mg binding site IVb [ion binding]; other site 94122005300 putative phosphate binding site [ion binding]; other site 94122005301 putative DNA binding site [nucleotide binding]; other site 94122005302 putative Mg binding site IVa [ion binding]; other site 94122005303 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 94122005304 FOG: PKD repeat [General function prediction only]; Region: COG3291 94122005305 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 94122005306 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 94122005307 HSP70 interaction site [polypeptide binding]; other site 94122005308 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 94122005309 THUMP domain; Region: THUMP; cl12076 94122005310 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 94122005311 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 94122005312 S-adenosylmethionine binding site [chemical binding]; other site 94122005313 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 94122005314 catalytic residues [active] 94122005315 ABC transporter ATPase component; Reviewed; Region: PRK11147 94122005316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005317 Walker A/P-loop; other site 94122005318 ATP binding site [chemical binding]; other site 94122005319 Q-loop/lid; other site 94122005320 ABC transporter signature motif; other site 94122005321 Walker B; other site 94122005322 D-loop; other site 94122005323 H-loop/switch region; other site 94122005324 ABC transporter; Region: ABC_tran_2; pfam12848 94122005325 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 94122005326 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 94122005327 Ribosome modulation factor; Region: RMF; cl01207 94122005328 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 94122005329 active site 1 [active] 94122005330 dimer interface [polypeptide binding]; other site 94122005331 active site 2 [active] 94122005332 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 94122005333 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 94122005334 response regulator; Provisional; Region: PRK09483 94122005335 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 94122005336 active site 94122005337 phosphorylation site [posttranslational modification] 94122005338 intermolecular recognition site; other site 94122005339 dimerization interface [polypeptide binding]; other site 94122005340 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 94122005341 DNA binding residues [nucleotide binding] 94122005342 dimerization interface [polypeptide binding]; other site 94122005343 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 94122005344 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 94122005345 GIY-YIG motif/motif A; other site 94122005346 active site 94122005347 catalytic site [active] 94122005348 putative DNA binding site [nucleotide binding]; other site 94122005349 metal binding site [ion binding]; metal-binding site 94122005350 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 94122005351 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 94122005352 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 94122005353 active site 94122005354 catalytic triad [active] 94122005355 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 94122005356 IHF dimer interface [polypeptide binding]; other site 94122005357 IHF - DNA interface [nucleotide binding]; other site 94122005358 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 94122005359 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 94122005360 Catalytic domain of Protein Kinases; Region: PKc; cd00180 94122005361 active site 94122005362 ATP binding site [chemical binding]; other site 94122005363 substrate binding site [chemical binding]; other site 94122005364 activation loop (A-loop); other site 94122005365 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 94122005366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005367 Walker A/P-loop; other site 94122005368 ATP binding site [chemical binding]; other site 94122005369 Q-loop/lid; other site 94122005370 ABC transporter signature motif; other site 94122005371 Walker B; other site 94122005372 D-loop; other site 94122005373 H-loop/switch region; other site 94122005374 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122005375 hypothetical protein; Provisional; Region: PRK11239 94122005376 Protein of unknown function, DUF480; Region: DUF480; cl01209 94122005377 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 94122005378 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 94122005379 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 94122005380 arginine decarboxylase; Provisional; Region: PRK05354 94122005381 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 94122005382 dimer interface [polypeptide binding]; other site 94122005383 active site 94122005384 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 94122005385 catalytic residues [active] 94122005386 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 94122005387 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 94122005388 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 94122005389 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 94122005390 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 94122005391 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 94122005392 YceI-like domain; Region: YceI; cl01001 94122005393 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 94122005394 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 94122005395 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 94122005396 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 94122005397 Cache domain; Region: Cache_1; pfam02743 94122005398 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 94122005399 PAS fold; Region: PAS_4; pfam08448 94122005400 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 94122005401 ATP binding site [chemical binding]; other site 94122005402 Mg2+ binding site [ion binding]; other site 94122005403 G-X-G motif; other site 94122005404 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 94122005405 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 94122005406 transmembrane helices; other site 94122005407 fatty acid metabolism regulator; Provisional; Region: PRK04984 94122005408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122005409 DNA-binding site [nucleotide binding]; DNA binding site 94122005410 FCD domain; Region: FCD; cl11656 94122005411 SpoVR family protein; Provisional; Region: PRK11767 94122005412 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 94122005413 Uncharacterized conserved protein [Function unknown]; Region: COG2718 94122005414 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 94122005415 PrkA family serine protein kinase; Provisional; Region: PRK15455 94122005416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005417 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 94122005418 superoxide dismutase; Provisional; Region: PRK10543 94122005419 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 94122005420 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 94122005421 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 94122005422 putative GSH binding site [chemical binding]; other site 94122005423 catalytic residues [active] 94122005424 uracil-xanthine permease; Region: ncs2; TIGR00801 94122005425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 94122005426 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 94122005427 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005428 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 94122005429 putative transposase OrfB; Reviewed; Region: PHA02517 94122005430 Integrase core domain; Region: rve; cl01316 94122005431 Integrase core domain; Region: rve_3; cl15866 94122005432 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 94122005433 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 94122005434 ArsC family; Region: ArsC; pfam03960 94122005435 catalytic residues [active] 94122005436 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 94122005437 Peptidase family M48; Region: Peptidase_M48; cl12018 94122005438 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 94122005439 binding surface 94122005440 TPR motif; other site 94122005441 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 94122005442 CPxP motif; other site 94122005443 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 94122005444 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 94122005445 Helix-turn-helix domains; Region: HTH; cl00088 94122005446 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 94122005447 putative dimerization interface [polypeptide binding]; other site 94122005448 LysE type translocator; Region: LysE; cl00565 94122005449 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 94122005450 catalytic triad [active] 94122005451 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 94122005452 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 94122005453 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 94122005454 dihydrodipicolinate synthase; Region: dapA; TIGR00674 94122005455 dimer interface [polypeptide binding]; other site 94122005456 active site 94122005457 catalytic residue [active] 94122005458 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 94122005459 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 94122005460 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122005461 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 94122005462 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 94122005463 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122005464 Protein export membrane protein; Region: SecD_SecF; cl14618 94122005465 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 94122005466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122005467 Coenzyme A binding pocket [chemical binding]; other site 94122005468 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 94122005469 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122005470 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 94122005471 conserved cys residue [active] 94122005472 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 94122005473 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 94122005474 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 94122005475 active site 94122005476 catalytic residues [active] 94122005477 metal binding site [ion binding]; metal-binding site 94122005478 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 94122005479 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 94122005480 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122005481 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 94122005482 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 94122005483 carboxyltransferase (CT) interaction site; other site 94122005484 biotinylation site [posttranslational modification]; other site 94122005485 enoyl-CoA hydratase; Provisional; Region: PRK05995 94122005486 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 94122005487 substrate binding site [chemical binding]; other site 94122005488 oxyanion hole (OAH) forming residues; other site 94122005489 trimer interface [polypeptide binding]; other site 94122005490 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 94122005491 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 94122005492 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 94122005493 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 94122005494 isovaleryl-CoA dehydrogenase; Region: PLN02519 94122005495 substrate binding site [chemical binding]; other site 94122005496 FAD binding site [chemical binding]; other site 94122005497 catalytic base [active] 94122005498 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 94122005499 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 94122005500 DNA binding residues [nucleotide binding] 94122005501 putative dimer interface [polypeptide binding]; other site 94122005502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 94122005503 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 94122005504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005505 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 94122005506 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 94122005507 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 94122005508 AMP-binding enzyme; Region: AMP-binding; cl15778 94122005509 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122005510 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 94122005511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005512 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 94122005513 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 94122005514 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 94122005515 calcium binding site 1 [ion binding]; other site 94122005516 active site 94122005517 catalytic triad [active] 94122005518 calcium binding site 2 [ion binding]; other site 94122005519 calcium binding site 3 [ion binding]; other site 94122005520 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 94122005521 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 94122005522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122005523 Helix-turn-helix domains; Region: HTH; cl00088 94122005524 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 94122005525 dimerization interface [polypeptide binding]; other site 94122005526 DoxX; Region: DoxX; cl00976 94122005527 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 94122005528 putative active site [active] 94122005529 metal binding site [ion binding]; metal-binding site 94122005530 UbiA prenyltransferase family; Region: UbiA; cl00337 94122005531 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 94122005532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005533 NAD(P) binding site [chemical binding]; other site 94122005534 active site 94122005535 acyl-CoA thioesterase II; Provisional; Region: PRK10526 94122005536 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 94122005537 active site 94122005538 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 94122005539 catalytic triad [active] 94122005540 dimer interface [polypeptide binding]; other site 94122005541 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 94122005542 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122005543 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 94122005544 active site 94122005545 catalytic triad [active] 94122005546 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 94122005547 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122005548 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122005549 catalytic residues [active] 94122005550 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 94122005551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122005552 Helix-turn-helix domains; Region: HTH; cl00088 94122005553 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 94122005554 dimerization interface [polypeptide binding]; other site 94122005555 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 94122005556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122005557 putative substrate translocation pore; other site 94122005558 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 94122005559 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 94122005560 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 94122005561 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 94122005562 putative NAD(P) binding site [chemical binding]; other site 94122005563 putative substrate binding site [chemical binding]; other site 94122005564 catalytic Zn binding site [ion binding]; other site 94122005565 structural Zn binding site [ion binding]; other site 94122005566 dimer interface [polypeptide binding]; other site 94122005567 Cupin domain; Region: Cupin_2; cl09118 94122005568 Cyclophilin-like; Region: Cyclophil_like; cl00950 94122005569 Cupin domain; Region: Cupin_2; cl09118 94122005570 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 94122005571 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 94122005572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122005573 multidrug efflux protein NorA; Provisional; Region: PRK00187 94122005574 MatE; Region: MatE; cl10513 94122005575 MatE; Region: MatE; cl10513 94122005576 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 94122005577 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 94122005578 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122005579 Protein export membrane protein; Region: SecD_SecF; cl14618 94122005580 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122005581 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122005582 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 94122005583 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 94122005584 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 94122005585 dimer interface [polypeptide binding]; other site 94122005586 Citrate synthase; Region: Citrate_synt; pfam00285 94122005587 active site 94122005588 citrylCoA binding site [chemical binding]; other site 94122005589 NADH binding [chemical binding]; other site 94122005590 cationic pore residues; other site 94122005591 oxalacetate/citrate binding site [chemical binding]; other site 94122005592 coenzyme A binding site [chemical binding]; other site 94122005593 catalytic triad [active] 94122005594 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 94122005595 Iron-sulfur protein interface; other site 94122005596 proximal quinone binding site [chemical binding]; other site 94122005597 SdhD (CybS) interface [polypeptide binding]; other site 94122005598 proximal heme binding site [chemical binding]; other site 94122005599 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 94122005600 SdhC subunit interface [polypeptide binding]; other site 94122005601 proximal heme binding site [chemical binding]; other site 94122005602 cardiolipin binding site; other site 94122005603 Iron-sulfur protein interface; other site 94122005604 proximal quinone binding site [chemical binding]; other site 94122005605 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 94122005606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005607 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 94122005608 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 94122005609 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 94122005610 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 94122005611 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 94122005612 TPP-binding site [chemical binding]; other site 94122005613 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 94122005614 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 94122005615 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 94122005616 E3 interaction surface; other site 94122005617 lipoyl attachment site [posttranslational modification]; other site 94122005618 e3 binding domain; Region: E3_binding; pfam02817 94122005619 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 94122005620 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 94122005621 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122005622 CoA-ligase; Region: Ligase_CoA; cl02894 94122005623 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 94122005624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005625 CoA-ligase; Region: Ligase_CoA; cl02894 94122005626 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 94122005627 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122005628 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005629 ferric uptake regulator; Provisional; Region: fur; PRK09462 94122005630 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 94122005631 metal binding site 2 [ion binding]; metal-binding site 94122005632 putative DNA binding helix; other site 94122005633 metal binding site 1 [ion binding]; metal-binding site 94122005634 dimer interface [polypeptide binding]; other site 94122005635 structural Zn2+ binding site [ion binding]; other site 94122005636 NAD-dependent deacetylase; Provisional; Region: PRK00481 94122005637 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 94122005638 NAD+ binding site [chemical binding]; other site 94122005639 substrate binding site [chemical binding]; other site 94122005640 Zn binding site [ion binding]; other site 94122005641 AAA domain; Region: AAA_33; pfam13671 94122005642 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 94122005643 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 94122005644 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 94122005645 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 94122005646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122005647 Zn2+ binding site [ion binding]; other site 94122005648 Mg2+ binding site [ion binding]; other site 94122005649 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122005650 sensor protein PhoQ; Provisional; Region: PRK10815 94122005651 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 94122005652 ATP binding site [chemical binding]; other site 94122005653 Mg2+ binding site [ion binding]; other site 94122005654 G-X-G motif; other site 94122005655 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 94122005656 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 94122005657 active site 94122005658 phosphorylation site [posttranslational modification] 94122005659 intermolecular recognition site; other site 94122005660 dimerization interface [polypeptide binding]; other site 94122005661 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 94122005662 DNA binding site [nucleotide binding] 94122005663 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 94122005664 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122005665 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 94122005666 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 94122005667 Succinylarginine dihydrolase; Region: AstB; cl01511 94122005668 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 94122005669 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 94122005670 active site 94122005671 interdomain interaction site; other site 94122005672 putative metal-binding site [ion binding]; other site 94122005673 nucleotide binding site [chemical binding]; other site 94122005674 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 94122005675 domain I; other site 94122005676 DNA binding groove [nucleotide binding] 94122005677 phosphate binding site [ion binding]; other site 94122005678 domain II; other site 94122005679 domain III; other site 94122005680 nucleotide binding site [chemical binding]; other site 94122005681 catalytic site [active] 94122005682 domain IV; other site 94122005683 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 94122005684 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 94122005685 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 94122005686 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 94122005687 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 94122005688 Helix-turn-helix domains; Region: HTH; cl00088 94122005689 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 94122005690 substrate binding site [chemical binding]; other site 94122005691 dimerization interface [polypeptide binding]; other site 94122005692 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 94122005693 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 94122005694 active site 94122005695 phosphorylation site [posttranslational modification] 94122005696 intermolecular recognition site; other site 94122005697 dimerization interface [polypeptide binding]; other site 94122005698 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 94122005699 DNA binding residues [nucleotide binding] 94122005700 dimerization interface [polypeptide binding]; other site 94122005701 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 94122005702 NeuB family; Region: NeuB; cl00496 94122005703 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 94122005704 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 94122005705 phosphoenolpyruvate synthase; Validated; Region: PRK06464 94122005706 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 94122005707 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 94122005708 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 94122005709 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 94122005710 FAD binding domain; Region: FAD_binding_4; pfam01565 94122005711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005712 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 94122005713 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 94122005714 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 94122005715 Helix-turn-helix domains; Region: HTH; cl00088 94122005716 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 94122005717 Peptidase S8 family domain, uncharacterized subfamily 6; Region: Peptidases_S8_6; cd07490 94122005718 active site 94122005719 catalytic triad [active] 94122005720 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 94122005721 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122005722 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 94122005723 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 94122005724 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 94122005725 NAD binding site [chemical binding]; other site 94122005726 Phe binding site; other site 94122005727 Cupin superfamily protein; Region: Cupin_4; pfam08007 94122005728 JmjC domain, hydroxylase; Region: JmjC; cl15814 94122005729 adenylosuccinate lyase; Provisional; Region: PRK09285 94122005730 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 94122005731 tetramer interface [polypeptide binding]; other site 94122005732 active site 94122005733 Protein of unknown function (DUF489); Region: DUF489; cl01097 94122005734 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 94122005735 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 94122005736 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 94122005737 nudix motif; other site 94122005738 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 94122005739 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 94122005740 probable active site [active] 94122005741 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 94122005742 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 94122005743 DNA-binding site [nucleotide binding]; DNA binding site 94122005744 RNA-binding motif; other site 94122005745 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 94122005746 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 94122005747 Clp amino terminal domain; Region: Clp_N; pfam02861 94122005748 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 94122005749 Walker A motif; other site 94122005750 ATP binding site [chemical binding]; other site 94122005751 Walker B motif; other site 94122005752 arginine finger; other site 94122005753 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 94122005754 Walker A motif; other site 94122005755 ATP binding site [chemical binding]; other site 94122005756 Walker B motif; other site 94122005757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 94122005758 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 94122005759 rRNA binding site [nucleotide binding]; other site 94122005760 predicted 30S ribosome binding site; other site 94122005761 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 94122005762 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 94122005763 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005764 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122005765 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 94122005766 Uncharacterized conserved protein [Function unknown]; Region: COG0327 94122005767 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 94122005768 Membrane transport protein; Region: Mem_trans; cl09117 94122005769 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 94122005770 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 94122005771 active site 94122005772 HIGH motif; other site 94122005773 KMSKS motif; other site 94122005774 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 94122005775 tRNA binding surface [nucleotide binding]; other site 94122005776 anticodon binding site; other site 94122005777 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 94122005778 dimer interface [polypeptide binding]; other site 94122005779 putative tRNA-binding site [nucleotide binding]; other site 94122005780 antiporter inner membrane protein; Provisional; Region: PRK11670 94122005781 Domain of unknown function DUF59; Region: DUF59; cl00941 94122005782 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 94122005783 Walker A motif; other site 94122005784 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 94122005785 Sugar specificity; other site 94122005786 Pyrimidine base specificity; other site 94122005787 ATP-binding site [chemical binding]; other site 94122005788 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 94122005789 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 94122005790 trimer interface [polypeptide binding]; other site 94122005791 active site 94122005792 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 94122005793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122005794 catalytic residue [active] 94122005795 YceG-like family; Region: YceG; pfam02618 94122005796 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 94122005797 dimerization interface [polypeptide binding]; other site 94122005798 thymidylate kinase; Validated; Region: tmk; PRK00698 94122005799 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 94122005800 TMP-binding site; other site 94122005801 ATP-binding site [chemical binding]; other site 94122005802 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 94122005803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005804 PilZ domain; Region: PilZ; cl01260 94122005805 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 94122005806 active site 94122005807 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 94122005808 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 94122005809 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 94122005810 Nucleoside recognition; Region: Gate; cl00486 94122005811 Nucleoside recognition; Region: Gate; cl00486 94122005812 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 94122005813 mce related protein; Region: MCE; pfam02470 94122005814 mce related protein; Region: MCE; pfam02470 94122005815 mce related protein; Region: MCE; pfam02470 94122005816 mce related protein; Region: MCE; pfam02470 94122005817 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 94122005818 mce related protein; Region: MCE; pfam02470 94122005819 Paraquat-inducible protein A; Region: PqiA; pfam04403 94122005820 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 94122005821 Paraquat-inducible protein A; Region: PqiA; pfam04403 94122005822 YebG protein; Region: YebG; cl01217 94122005823 GAF domain; Region: GAF; cl15785 94122005824 ProP expression regulator; Provisional; Region: PRK04950 94122005825 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 94122005826 carboxy-terminal protease; Provisional; Region: PRK11186 94122005827 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 94122005828 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 94122005829 protein binding site [polypeptide binding]; other site 94122005830 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 94122005831 Catalytic dyad [active] 94122005832 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 94122005833 aminopeptidase N; Provisional; Region: pepN; PRK14015 94122005834 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 94122005835 active site 94122005836 Zn binding site [ion binding]; other site 94122005837 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 94122005838 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 94122005839 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 94122005840 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 94122005841 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 94122005842 Protein export membrane protein; Region: SecD_SecF; cl14618 94122005843 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 94122005844 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 94122005845 quinone interaction residues [chemical binding]; other site 94122005846 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 94122005847 active site 94122005848 catalytic residues [active] 94122005849 FMN binding site [chemical binding]; other site 94122005850 substrate binding site [chemical binding]; other site 94122005851 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 94122005852 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 94122005853 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 94122005854 putative catalytic cysteine [active] 94122005855 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 94122005856 putative active site [active] 94122005857 metal binding site [ion binding]; metal-binding site 94122005858 MarC family integral membrane protein; Region: MarC; cl00919 94122005859 Nitrate and nitrite sensing; Region: NIT; pfam08376 94122005860 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 94122005861 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122005862 dimer interface [polypeptide binding]; other site 94122005863 putative CheW interface [polypeptide binding]; other site 94122005864 integrase; Provisional; Region: PRK09692 94122005865 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 94122005866 active site 94122005867 Int/Topo IB signature motif; other site 94122005868 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 94122005869 active site 94122005870 NTP binding site [chemical binding]; other site 94122005871 metal binding triad [ion binding]; metal-binding site 94122005872 antibiotic binding site [chemical binding]; other site 94122005873 Protein of unknown function DUF86; Region: DUF86; cl01031 94122005874 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 94122005875 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 94122005876 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 94122005877 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 94122005878 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 94122005879 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 94122005880 Int/Topo IB signature motif; other site 94122005881 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 94122005882 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 94122005883 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 94122005884 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 94122005885 MPN+ (JAMM) motif; other site 94122005886 Zinc-binding site [ion binding]; other site 94122005887 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 94122005888 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 94122005889 DNA binding residues [nucleotide binding] 94122005890 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 94122005891 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 94122005892 metal ion-dependent adhesion site (MIDAS); other site 94122005893 hypothetical protein; Provisional; Region: PRK10236 94122005894 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 94122005895 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 94122005896 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 94122005897 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 94122005898 Walker A motif; other site 94122005899 ATP binding site [chemical binding]; other site 94122005900 Walker B motif; other site 94122005901 arginine finger; other site 94122005902 Helix-turn-helix domains; Region: HTH; cl00088 94122005903 MoxR-like ATPases [General function prediction only]; Region: COG0714 94122005904 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 94122005905 Walker A motif; other site 94122005906 ATP binding site [chemical binding]; other site 94122005907 Walker B motif; other site 94122005908 arginine finger; other site 94122005909 hypothetical protein; Provisional; Region: yieM; PRK10997 94122005910 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 94122005911 metal ion-dependent adhesion site (MIDAS); other site 94122005912 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 94122005913 Protein of unknown function DUF262; Region: DUF262; cl14890 94122005914 Protein of unknown function DUF262; Region: DUF262; cl14890 94122005915 PglZ domain; Region: PglZ; pfam08665 94122005916 Zeta toxin; Region: Zeta_toxin; pfam06414 94122005917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122005919 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122005920 AAA-like domain; Region: AAA_10; pfam12846 94122005921 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 94122005922 active site 94122005923 metal binding site [ion binding]; metal-binding site 94122005924 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 94122005925 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 94122005926 active site 94122005927 DNA binding site [nucleotide binding] 94122005928 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 94122005929 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 94122005930 Catalytic site [active] 94122005931 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 94122005932 Catalytic site [active] 94122005933 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 94122005934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122005935 FAD dependent oxidoreductase; Region: DAO; pfam01266 94122005936 LysR family transcriptional regulator; Provisional; Region: PRK14997 94122005937 Helix-turn-helix domains; Region: HTH; cl00088 94122005938 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 94122005939 putative effector binding pocket; other site 94122005940 putative dimerization interface [polypeptide binding]; other site 94122005941 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 94122005942 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 94122005943 substrate binding site [chemical binding]; other site 94122005944 catalytic Zn binding site [ion binding]; other site 94122005945 NAD binding site [chemical binding]; other site 94122005946 structural Zn binding site [ion binding]; other site 94122005947 dimer interface [polypeptide binding]; other site 94122005948 Predicted esterase [General function prediction only]; Region: COG0627 94122005949 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 94122005950 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 94122005951 active site 94122005952 substrate binding sites [chemical binding]; other site 94122005953 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 94122005954 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 94122005955 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 94122005956 Dicarboxylate transport; Region: DctA-YdbH; cl14674 94122005957 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 94122005958 aromatic amino acid transport protein; Region: araaP; TIGR00837 94122005959 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 94122005960 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 94122005961 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 94122005962 metal binding site [ion binding]; metal-binding site 94122005963 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 94122005964 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 94122005965 substrate binding site [chemical binding]; other site 94122005966 glutamase interaction surface [polypeptide binding]; other site 94122005967 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 94122005968 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 94122005969 catalytic residues [active] 94122005970 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 94122005971 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 94122005972 putative active site [active] 94122005973 oxyanion strand; other site 94122005974 catalytic triad [active] 94122005975 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 94122005976 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 94122005977 active site 94122005978 motif I; other site 94122005979 motif II; other site 94122005980 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 94122005981 putative active site pocket [active] 94122005982 4-fold oligomerization interface [polypeptide binding]; other site 94122005983 metal binding residues [ion binding]; metal-binding site 94122005984 3-fold/trimer interface [polypeptide binding]; other site 94122005985 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 94122005986 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 94122005987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122005988 homodimer interface [polypeptide binding]; other site 94122005989 catalytic residue [active] 94122005990 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 94122005991 histidinol dehydrogenase; Region: hisD; TIGR00069 94122005992 NAD binding site [chemical binding]; other site 94122005993 dimerization interface [polypeptide binding]; other site 94122005994 product binding site; other site 94122005995 substrate binding site [chemical binding]; other site 94122005996 zinc binding site [ion binding]; other site 94122005997 catalytic residues [active] 94122005998 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 94122005999 ATP phosphoribosyltransferase; Region: HisG; cl15266 94122006000 HisG, C-terminal domain; Region: HisG_C; cl06867 94122006001 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 94122006002 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 94122006003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006005 Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]; Region: MreB; COG1077 94122006006 hypothetical protein; Provisional; Region: PRK10039 94122006007 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 94122006008 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 94122006009 N-terminal plug; other site 94122006010 ligand-binding site [chemical binding]; other site 94122006011 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122006012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122006013 dimer interface [polypeptide binding]; other site 94122006014 putative CheW interface [polypeptide binding]; other site 94122006015 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 94122006016 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 94122006017 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 94122006018 dimer interface [polypeptide binding]; other site 94122006019 motif 1; other site 94122006020 active site 94122006021 motif 2; other site 94122006022 motif 3; other site 94122006023 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 94122006024 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 94122006025 putative tRNA-binding site [nucleotide binding]; other site 94122006026 B3/4 domain; Region: B3_4; cl11458 94122006027 tRNA synthetase B5 domain; Region: B5; cl08394 94122006028 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 94122006029 dimer interface [polypeptide binding]; other site 94122006030 motif 1; other site 94122006031 motif 3; other site 94122006032 motif 2; other site 94122006033 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 94122006034 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 94122006035 IHF dimer interface [polypeptide binding]; other site 94122006036 IHF - DNA interface [nucleotide binding]; other site 94122006037 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 94122006038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 94122006039 putative acyl-acceptor binding pocket; other site 94122006040 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 94122006041 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 94122006042 dimerization interface [polypeptide binding]; other site 94122006043 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 94122006044 ATP binding site [chemical binding]; other site 94122006045 Hydrogenase formation hypA family; Region: HypD; cl12072 94122006046 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 94122006047 HupF/HypC family; Region: HupF_HypC; cl00394 94122006048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006049 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 94122006050 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 94122006051 putative molybdopterin cofactor binding site [chemical binding]; other site 94122006052 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 94122006053 putative molybdopterin cofactor binding site; other site 94122006054 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 94122006055 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 94122006056 Helix-turn-helix domains; Region: HTH; cl00088 94122006057 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 94122006058 dimerization interface [polypeptide binding]; other site 94122006059 Acylphosphatase; Region: Acylphosphatase; cl00551 94122006060 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 94122006061 HypF finger; Region: zf-HYPF; pfam07503 94122006062 HypF finger; Region: zf-HYPF; pfam07503 94122006063 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 94122006064 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 94122006065 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 94122006066 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 94122006067 putative substrate-binding site; other site 94122006068 nickel binding site [ion binding]; other site 94122006069 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 94122006070 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 94122006071 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 94122006072 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 94122006073 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 94122006074 catalytic residues [active] 94122006075 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 94122006076 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 94122006077 ApbE family; Region: ApbE; cl00643 94122006078 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 94122006079 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 94122006080 active site 94122006081 phosphorylation site [posttranslational modification] 94122006082 intermolecular recognition site; other site 94122006083 dimerization interface [polypeptide binding]; other site 94122006084 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 94122006085 DNA binding site [nucleotide binding] 94122006086 sensor protein QseC; Provisional; Region: PRK10337 94122006087 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 94122006088 dimer interface [polypeptide binding]; other site 94122006089 phosphorylation site [posttranslational modification] 94122006090 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 94122006091 ATP binding site [chemical binding]; other site 94122006092 Mg2+ binding site [ion binding]; other site 94122006093 G-X-G motif; other site 94122006094 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 94122006095 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 94122006096 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 94122006097 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 94122006098 Ligand binding site; other site 94122006099 DXD motif; other site 94122006100 murein L,D-transpeptidase; Provisional; Region: PRK10594 94122006101 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 94122006102 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 94122006103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 94122006104 Peptidase M15; Region: Peptidase_M15_3; cl01194 94122006105 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 94122006106 5S rRNA interface [nucleotide binding]; other site 94122006107 CTC domain interface [polypeptide binding]; other site 94122006108 L16 interface [polypeptide binding]; other site 94122006109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 94122006110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 94122006111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 94122006112 Family of unknown function (DUF490); Region: DUF490; pfam04357 94122006113 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 94122006114 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122006115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122006116 Surface antigen; Region: Bac_surface_Ag; cl03097 94122006117 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 94122006118 catalytic nucleophile [active] 94122006119 FOG: CBS domain [General function prediction only]; Region: COG0517 94122006120 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_16; cd04629 94122006121 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 94122006122 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 94122006123 ATP binding site [chemical binding]; other site 94122006124 putative Mg++ binding site [ion binding]; other site 94122006125 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 94122006126 nucleotide binding region [chemical binding]; other site 94122006127 ATP-binding site [chemical binding]; other site 94122006128 Helicase associated domain (HA2); Region: HA2; cl04503 94122006129 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 94122006130 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 94122006131 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 94122006132 NapD protein; Region: NapD; cl01163 94122006133 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 94122006134 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 94122006135 [4Fe-4S] binding site [ion binding]; other site 94122006136 molybdopterin cofactor binding site; other site 94122006137 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 94122006138 molybdopterin cofactor binding site; other site 94122006139 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 94122006140 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 94122006141 Restriction endonuclease; Region: Mrr_cat; cl00516 94122006142 histone acetyltransferase, ELP3 family; Region: ELP3; TIGR01211 94122006143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122006144 Coenzyme A binding pocket [chemical binding]; other site 94122006145 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 94122006146 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 94122006147 Ligand binding site; other site 94122006148 oligomer interface; other site 94122006149 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH3; cd08184 94122006150 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 94122006151 putative active site [active] 94122006152 metal binding site [ion binding]; metal-binding site 94122006153 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 94122006154 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 94122006155 inhibitor-cofactor binding pocket; inhibition site 94122006156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122006157 catalytic residue [active] 94122006158 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 94122006159 active site clefts [active] 94122006160 zinc binding site [ion binding]; other site 94122006161 dimer interface [polypeptide binding]; other site 94122006162 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122006163 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 94122006164 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 94122006165 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 94122006166 metal binding site [ion binding]; metal-binding site 94122006167 dimer interface [polypeptide binding]; other site 94122006168 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 94122006169 ArsC family; Region: ArsC; pfam03960 94122006170 putative catalytic residues [active] 94122006171 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 94122006172 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 94122006173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122006174 Helix-turn-helix domains; Region: HTH; cl00088 94122006175 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 94122006176 dimerization interface [polypeptide binding]; other site 94122006177 putative effector binding pocket; other site 94122006178 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122006179 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 94122006180 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122006181 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 94122006182 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 94122006183 Paraquat-inducible protein A; Region: PqiA; pfam04403 94122006184 Paraquat-inducible protein A; Region: PqiA; pfam04403 94122006185 paraquat-inducible protein B; Provisional; Region: PRK10807 94122006186 mce related protein; Region: MCE; pfam02470 94122006187 mce related protein; Region: MCE; pfam02470 94122006188 mce related protein; Region: MCE; pfam02470 94122006189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 94122006190 Protein of unknown function (DUF330); Region: DUF330; cl01135 94122006191 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 94122006192 transmembrane helices; other site 94122006193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122006194 Helix-turn-helix domain; Region: HTH_18; pfam12833 94122006195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122006196 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 94122006197 Domain interface; other site 94122006198 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 94122006199 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 94122006200 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 94122006201 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 94122006202 YCII-related domain; Region: YCII; cl00999 94122006203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122006204 Coenzyme A binding pocket [chemical binding]; other site 94122006205 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 94122006206 Helix-turn-helix domain; Region: HTH_18; pfam12833 94122006207 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 94122006208 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 94122006209 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_27; cd04686 94122006210 nudix motif; other site 94122006211 Haemolysin-III related; Region: HlyIII; cl03831 94122006212 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 94122006213 ThiC-associated domain; Region: ThiC-associated; pfam13667 94122006214 ThiC family; Region: ThiC; cl08031 94122006215 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 94122006216 dimer interface [polypeptide binding]; other site 94122006217 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 94122006218 substrate binding site [chemical binding]; other site 94122006219 ATP binding site [chemical binding]; other site 94122006220 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 94122006221 active site 94122006222 thiamine phosphate binding site [chemical binding]; other site 94122006223 pyrophosphate binding site [ion binding]; other site 94122006224 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 94122006225 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 94122006226 ATP binding site [chemical binding]; other site 94122006227 substrate interface [chemical binding]; other site 94122006228 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 94122006229 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 94122006230 thiS-thiF/thiG interaction site; other site 94122006231 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 94122006232 ThiS interaction site; other site 94122006233 putative active site [active] 94122006234 tetramer interface [polypeptide binding]; other site 94122006235 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 94122006236 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 94122006237 FeS/SAM binding site; other site 94122006238 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 94122006239 SprA-related family; Region: SprA-related; pfam12118 94122006240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122006241 Helix-turn-helix domains; Region: HTH; cl00088 94122006242 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 94122006243 dimerization interface [polypeptide binding]; other site 94122006244 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 94122006245 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 94122006246 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122006247 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 94122006248 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 94122006249 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 94122006250 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 94122006251 S-adenosylmethionine binding site [chemical binding]; other site 94122006252 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 94122006253 S-adenosylmethionine binding site [chemical binding]; other site 94122006254 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122006255 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 94122006256 substrate binding pocket [chemical binding]; other site 94122006257 membrane-bound complex binding site; other site 94122006258 hinge residues; other site 94122006259 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122006260 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 94122006261 substrate binding pocket [chemical binding]; other site 94122006262 membrane-bound complex binding site; other site 94122006263 hinge residues; other site 94122006264 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 94122006265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122006266 substrate binding pocket [chemical binding]; other site 94122006267 membrane-bound complex binding site; other site 94122006268 hinge residues; other site 94122006269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122006270 metal binding site [ion binding]; metal-binding site 94122006271 active site 94122006272 I-site; other site 94122006273 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 94122006274 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 94122006275 dimer interface [polypeptide binding]; other site 94122006276 anticodon binding site; other site 94122006277 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 94122006278 homodimer interface [polypeptide binding]; other site 94122006279 motif 1; other site 94122006280 active site 94122006281 motif 2; other site 94122006282 GAD domain; Region: GAD; pfam02938 94122006283 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 94122006284 active site 94122006285 motif 3; other site 94122006286 Transcriptional regulator; Region: Transcrip_reg; cl00361 94122006287 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 94122006288 active site 94122006289 putative DNA-binding cleft [nucleotide binding]; other site 94122006290 dimer interface [polypeptide binding]; other site 94122006291 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 94122006292 RuvA N terminal domain; Region: RuvA_N; pfam01330 94122006293 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 94122006294 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 94122006295 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 94122006296 Walker A motif; other site 94122006297 ATP binding site [chemical binding]; other site 94122006298 Walker B motif; other site 94122006299 arginine finger; other site 94122006300 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 94122006301 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122006302 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 94122006303 N-terminal plug; other site 94122006304 ligand-binding site [chemical binding]; other site 94122006305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122006306 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 94122006307 active site 94122006308 phosphorylation site [posttranslational modification] 94122006309 intermolecular recognition site; other site 94122006310 dimerization interface [polypeptide binding]; other site 94122006311 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 94122006312 DNA binding site [nucleotide binding] 94122006313 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 94122006314 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 94122006315 putative active site [active] 94122006316 Zn binding site [ion binding]; other site 94122006317 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 94122006318 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 94122006319 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 94122006320 active site 94122006321 homodimer interface [polypeptide binding]; other site 94122006322 protease 4; Provisional; Region: PRK10949 94122006323 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 94122006324 tandem repeat interface [polypeptide binding]; other site 94122006325 oligomer interface [polypeptide binding]; other site 94122006326 active site residues [active] 94122006327 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 94122006328 tandem repeat interface [polypeptide binding]; other site 94122006329 oligomer interface [polypeptide binding]; other site 94122006330 active site residues [active] 94122006331 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 94122006332 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 94122006333 active site 94122006334 FMN binding site [chemical binding]; other site 94122006335 2,4-decadienoyl-CoA binding site; other site 94122006336 catalytic residue [active] 94122006337 4Fe-4S cluster binding site [ion binding]; other site 94122006338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122006339 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 94122006340 catalytic loop [active] 94122006341 iron binding site [ion binding]; other site 94122006342 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 94122006343 dimer interface [polypeptide binding]; other site 94122006344 putative radical transfer pathway; other site 94122006345 diiron center [ion binding]; other site 94122006346 tyrosyl radical; other site 94122006347 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 94122006348 ATP cone domain; Region: ATP-cone; pfam03477 94122006349 Class I ribonucleotide reductase; Region: RNR_I; cd01679 94122006350 active site 94122006351 dimer interface [polypeptide binding]; other site 94122006352 catalytic residues [active] 94122006353 effector binding site; other site 94122006354 R2 peptide binding site; other site 94122006355 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 94122006356 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 94122006357 motif II; other site 94122006358 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 94122006359 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 94122006360 S-adenosylmethionine binding site [chemical binding]; other site 94122006361 DNA gyrase subunit A; Validated; Region: PRK05560 94122006362 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 94122006363 CAP-like domain; other site 94122006364 active site 94122006365 primary dimer interface [polypeptide binding]; other site 94122006366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006368 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006369 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006370 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006371 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 94122006372 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 94122006373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122006374 catalytic residue [active] 94122006375 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 94122006376 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 94122006377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122006378 homodimer interface [polypeptide binding]; other site 94122006379 catalytic residue [active] 94122006380 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 94122006381 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 94122006382 hinge; other site 94122006383 active site 94122006384 cytidylate kinase; Provisional; Region: cmk; PRK00023 94122006385 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 94122006386 CMP-binding site; other site 94122006387 The sites determining sugar specificity; other site 94122006388 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 94122006389 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 94122006390 RNA binding site [nucleotide binding]; other site 94122006391 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 94122006392 RNA binding site [nucleotide binding]; other site 94122006393 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 94122006394 RNA binding site [nucleotide binding]; other site 94122006395 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 94122006396 RNA binding site [nucleotide binding]; other site 94122006397 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 94122006398 RNA binding site [nucleotide binding]; other site 94122006399 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 94122006400 RNA binding site [nucleotide binding]; other site 94122006401 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 94122006402 IHF dimer interface [polypeptide binding]; other site 94122006403 IHF - DNA interface [nucleotide binding]; other site 94122006404 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 94122006405 tetratricopeptide repeat protein; Provisional; Region: PRK11788 94122006406 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 94122006407 binding surface 94122006408 TPR motif; other site 94122006409 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 94122006410 active site 94122006411 dimer interface [polypeptide binding]; other site 94122006412 short chain dehydrogenase; Provisional; Region: PRK07576 94122006413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122006414 NAD(P) binding site [chemical binding]; other site 94122006415 active site 94122006416 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 94122006417 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 94122006418 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 94122006419 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 94122006420 active site 94122006421 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 94122006422 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 94122006423 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122006424 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 94122006425 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 94122006426 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 94122006427 domain interface [polypeptide binding]; other site 94122006428 putative active site [active] 94122006429 catalytic site [active] 94122006430 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 94122006431 domain interface [polypeptide binding]; other site 94122006432 putative active site [active] 94122006433 catalytic site [active] 94122006434 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 94122006435 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 94122006436 putative substrate translocation pore; other site 94122006437 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122006438 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 94122006439 DTW domain; Region: DTW; cl01221 94122006440 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122006441 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 94122006442 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 94122006443 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 94122006444 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 94122006445 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 94122006446 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 94122006447 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 94122006448 active site 94122006449 DNA binding site [nucleotide binding] 94122006450 Int/Topo IB signature motif; other site 94122006451 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122006452 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 94122006453 ATP binding site [chemical binding]; other site 94122006454 putative Mg++ binding site [ion binding]; other site 94122006455 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 94122006456 nucleotide binding region [chemical binding]; other site 94122006457 ATP-binding site [chemical binding]; other site 94122006458 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 94122006459 secondary substrate binding site; other site 94122006460 primary substrate binding site; other site 94122006461 inhibition loop; other site 94122006462 dimerization interface [polypeptide binding]; other site 94122006463 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 94122006464 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122006465 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 94122006466 active site 94122006467 nucleotide binding site [chemical binding]; other site 94122006468 HIGH motif; other site 94122006469 KMSKS motif; other site 94122006470 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 94122006471 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 94122006472 active site 94122006473 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 94122006474 putative trimer interface [polypeptide binding]; other site 94122006475 putative CoA binding site [chemical binding]; other site 94122006476 Bacterial sugar transferase; Region: Bac_transf; cl00939 94122006477 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 94122006478 Bacterial sugar transferase; Region: Bac_transf; cl00939 94122006479 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 94122006480 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 94122006481 active site 94122006482 MatE; Region: MatE; cl10513 94122006483 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 94122006484 O-Antigen ligase; Region: Wzy_C; cl04850 94122006485 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 94122006486 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 94122006487 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 94122006488 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 94122006489 anti sigma factor interaction site; other site 94122006490 regulatory phosphorylation site [posttranslational modification]; other site 94122006491 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 94122006492 Response regulator receiver domain; Region: Response_reg; pfam00072 94122006493 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 94122006494 active site 94122006495 phosphorylation site [posttranslational modification] 94122006496 intermolecular recognition site; other site 94122006497 dimerization interface [polypeptide binding]; other site 94122006498 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 94122006499 NMT1-like family; Region: NMT1_2; cl15260 94122006500 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 94122006501 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 94122006502 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 94122006503 dimerization interface [polypeptide binding]; other site 94122006504 PAS domain S-box; Region: sensory_box; TIGR00229 94122006505 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 94122006506 putative active site [active] 94122006507 heme pocket [chemical binding]; other site 94122006508 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 94122006509 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 94122006510 putative active site [active] 94122006511 heme pocket [chemical binding]; other site 94122006512 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 94122006513 dimer interface [polypeptide binding]; other site 94122006514 phosphorylation site [posttranslational modification] 94122006515 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 94122006516 ATP binding site [chemical binding]; other site 94122006517 Mg2+ binding site [ion binding]; other site 94122006518 G-X-G motif; other site 94122006519 Response regulator receiver domain; Region: Response_reg; pfam00072 94122006520 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 94122006521 active site 94122006522 phosphorylation site [posttranslational modification] 94122006523 intermolecular recognition site; other site 94122006524 dimerization interface [polypeptide binding]; other site 94122006525 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 94122006526 putative binding surface; other site 94122006527 active site 94122006528 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122006529 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 94122006530 active site 94122006531 phosphorylation site [posttranslational modification] 94122006532 intermolecular recognition site; other site 94122006533 dimerization interface [polypeptide binding]; other site 94122006534 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 94122006535 Walker A motif; other site 94122006536 ATP binding site [chemical binding]; other site 94122006537 Walker B motif; other site 94122006538 arginine finger; other site 94122006539 Helix-turn-helix domains; Region: HTH; cl00088 94122006540 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 94122006541 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 94122006542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122006543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122006544 dimer interface [polypeptide binding]; other site 94122006545 putative CheW interface [polypeptide binding]; other site 94122006546 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 94122006547 active site 94122006548 DNA binding site [nucleotide binding] 94122006549 Int/Topo IB signature motif; other site 94122006550 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122006551 Zn2+ binding site [ion binding]; other site 94122006552 Mg2+ binding site [ion binding]; other site 94122006553 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 94122006554 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 94122006555 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 94122006556 active site 94122006557 DNA binding site [nucleotide binding] 94122006558 Int/Topo IB signature motif; other site 94122006559 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 94122006560 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122006561 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 94122006562 Walker A motif; other site 94122006563 ATP binding site [chemical binding]; other site 94122006564 Walker B motif; other site 94122006565 arginine finger; other site 94122006566 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 94122006567 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 94122006568 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122006569 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 94122006570 ATP binding site [chemical binding]; other site 94122006571 putative Mg++ binding site [ion binding]; other site 94122006572 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122006573 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 94122006574 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 94122006575 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122006576 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 94122006577 Domain of unknown function DUF87; Region: DUF87; pfam01935 94122006578 HerA helicase [Replication, recombination, and repair]; Region: COG0433 94122006579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006580 G1 box; other site 94122006581 GTP/Mg2+ binding site [chemical binding]; other site 94122006582 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 94122006583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006584 G3 box; other site 94122006585 Switch II region; other site 94122006586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006587 G1 box; other site 94122006588 GTP/Mg2+ binding site [chemical binding]; other site 94122006589 G2 box; other site 94122006590 Switch I region; other site 94122006591 G3 box; other site 94122006592 Switch II region; other site 94122006593 G4 box; other site 94122006594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122006595 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122006596 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 94122006597 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 94122006598 putative Mg++ binding site [ion binding]; other site 94122006599 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 94122006600 ATP-binding site [chemical binding]; other site 94122006601 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 94122006602 multidrug efflux protein; Reviewed; Region: PRK01766 94122006603 MatE; Region: MatE; cl10513 94122006604 MatE; Region: MatE; cl10513 94122006605 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 94122006606 Lumazine binding domain; Region: Lum_binding; pfam00677 94122006607 Lumazine binding domain; Region: Lum_binding; pfam00677 94122006608 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 94122006609 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 94122006610 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 94122006611 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 94122006612 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 94122006613 active site 94122006614 dimer interface [polypeptide binding]; other site 94122006615 motif 1; other site 94122006616 motif 2; other site 94122006617 motif 3; other site 94122006618 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 94122006619 anticodon binding site; other site 94122006620 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 94122006621 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 94122006622 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 94122006623 ribosomal protein L20; Region: rpl20; CHL00068 94122006624 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 94122006625 23S rRNA binding site [nucleotide binding]; other site 94122006626 L21 binding site [polypeptide binding]; other site 94122006627 L13 binding site [polypeptide binding]; other site 94122006628 thioredoxin reductase; Provisional; Region: PRK10262 94122006629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122006630 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 94122006631 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 94122006632 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 94122006633 NAD(P) binding site [chemical binding]; other site 94122006634 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 94122006635 Helix-turn-helix domains; Region: HTH; cl00088 94122006636 AsnC family; Region: AsnC_trans_reg; pfam01037 94122006637 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 94122006638 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 94122006639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006640 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 94122006641 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 94122006642 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 94122006643 recombination factor protein RarA; Reviewed; Region: PRK13342 94122006644 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 94122006645 Walker A motif; other site 94122006646 ATP binding site [chemical binding]; other site 94122006647 Walker B motif; other site 94122006648 arginine finger; other site 94122006649 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 94122006650 CrcB-like protein; Region: CRCB; cl09114 94122006651 seryl-tRNA synthetase; Provisional; Region: PRK05431 94122006652 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 94122006653 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 94122006654 dimer interface [polypeptide binding]; other site 94122006655 active site 94122006656 motif 1; other site 94122006657 motif 2; other site 94122006658 motif 3; other site 94122006659 DsrC like protein; Region: DsrC; cl01101 94122006660 DsrE/DsrF-like family; Region: DrsE; cl00672 94122006661 DsrE/DsrF-like family; Region: DrsE; cl00672 94122006662 DsrE/DsrF-like family; Region: DrsE; cl00672 94122006663 YccA-like proteins; Region: YccA_like; cd10433 94122006664 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 94122006665 Helix-turn-helix domains; Region: HTH; cl00088 94122006666 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 94122006667 dimerization interface [polypeptide binding]; other site 94122006668 putative transporter; Provisional; Region: PRK11043 94122006669 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 94122006670 putative substrate translocation pore; other site 94122006671 ribulokinase; Provisional; Region: PRK04123 94122006672 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 94122006673 putative N- and C-terminal domain interface [polypeptide binding]; other site 94122006674 putative active site [active] 94122006675 putative MgATP binding site [chemical binding]; other site 94122006676 catalytic site [active] 94122006677 metal binding site [ion binding]; metal-binding site 94122006678 carbohydrate binding site [chemical binding]; other site 94122006679 homodimer interface [polypeptide binding]; other site 94122006680 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 94122006681 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 94122006682 intersubunit interface [polypeptide binding]; other site 94122006683 active site 94122006684 Zn2+ binding site [ion binding]; other site 94122006685 L-arabinose isomerase; Provisional; Region: PRK02929 94122006686 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 94122006687 hexamer (dimer of trimers) interface [polypeptide binding]; other site 94122006688 trimer interface [polypeptide binding]; other site 94122006689 substrate binding site [chemical binding]; other site 94122006690 Mn binding site [ion binding]; other site 94122006691 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122006692 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 94122006693 Transcriptional regulators [Transcription]; Region: FadR; COG2186 94122006694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122006695 DNA-binding site [nucleotide binding]; DNA binding site 94122006696 FCD domain; Region: FCD; cl11656 94122006697 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 94122006698 substrate binding site [chemical binding]; other site 94122006699 active site 94122006700 Dehydratase family; Region: ILVD_EDD; cl00340 94122006701 short chain dehydrogenase; Provisional; Region: PRK12939 94122006702 classical (c) SDRs; Region: SDR_c; cd05233 94122006703 NAD(P) binding site [chemical binding]; other site 94122006704 active site 94122006705 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 94122006706 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 94122006707 active site 94122006708 catalytic residues [active] 94122006709 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 94122006710 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 94122006711 putative ligand binding site [chemical binding]; other site 94122006712 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 94122006713 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 94122006714 Walker A/P-loop; other site 94122006715 ATP binding site [chemical binding]; other site 94122006716 Q-loop/lid; other site 94122006717 ABC transporter signature motif; other site 94122006718 Walker B; other site 94122006719 D-loop; other site 94122006720 H-loop/switch region; other site 94122006721 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 94122006722 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 94122006723 TM-ABC transporter signature motif; other site 94122006724 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 94122006725 TM-ABC transporter signature motif; other site 94122006726 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 94122006727 active site 94122006728 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 94122006729 active site 94122006730 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 94122006731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 94122006732 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 94122006733 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 94122006734 MFS/sugar transport protein; Region: MFS_2; pfam13347 94122006735 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 94122006736 substrate binding site [chemical binding]; other site 94122006737 active site 94122006738 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 94122006739 active site 94122006740 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 94122006741 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 94122006742 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122006743 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 94122006744 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 94122006745 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 94122006746 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 94122006747 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 94122006748 substrate binding site [chemical binding]; other site 94122006749 active site 94122006750 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 94122006751 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 94122006752 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 94122006753 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 94122006754 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 94122006755 [4Fe-4S] binding site [ion binding]; other site 94122006756 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 94122006757 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 94122006758 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 94122006759 molybdopterin cofactor binding site; other site 94122006760 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 94122006761 4Fe-4S binding domain; Region: Fer4; cl02805 94122006762 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 94122006763 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 94122006764 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 94122006765 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 94122006766 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 94122006767 Helix-turn-helix domains; Region: HTH; cl00088 94122006768 Predicted transcriptional regulator [Transcription]; Region: COG2378 94122006769 WYL domain; Region: WYL; cl14852 94122006770 KicB killing factor; Region: KicB; cl11468 94122006771 MukE-like family; Region: MukE; cl11471 94122006772 cell division protein MukB; Provisional; Region: mukB; PRK04863 94122006773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122006774 Helix-turn-helix domains; Region: HTH; cl00088 94122006775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122006776 Restriction endonuclease; Region: Mrr_cat; cl00516 94122006777 Restriction endonuclease; Region: Mrr_cat; cl00516 94122006778 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 94122006779 Int/Topo IB signature motif; other site 94122006780 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122006781 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 94122006782 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 94122006783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122006784 Zn2+ binding site [ion binding]; other site 94122006785 Mg2+ binding site [ion binding]; other site 94122006786 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 94122006787 Low-spin heme binding site [chemical binding]; other site 94122006788 Putative water exit pathway; other site 94122006789 Binuclear center (active site) [active] 94122006790 Putative proton exit pathway; other site 94122006791 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 94122006792 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 94122006793 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 94122006794 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 94122006795 Cytochrome c; Region: Cytochrom_C; cl11414 94122006796 Cytochrome c; Region: Cytochrom_C; cl11414 94122006797 FixH; Region: FixH; cl01254 94122006798 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 94122006799 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 94122006800 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 94122006801 metal-binding site [ion binding] 94122006802 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 94122006803 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122006804 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 94122006805 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 94122006806 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 94122006807 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 94122006808 ligand binding site [chemical binding]; other site 94122006809 flexible hinge region; other site 94122006810 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 94122006811 putative switch regulator; other site 94122006812 non-specific DNA interactions [nucleotide binding]; other site 94122006813 DNA binding site [nucleotide binding] 94122006814 sequence specific DNA binding site [nucleotide binding]; other site 94122006815 putative cAMP binding site [chemical binding]; other site 94122006816 universal stress protein UspE; Provisional; Region: PRK11175 94122006817 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 94122006818 Ligand Binding Site [chemical binding]; other site 94122006819 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 94122006820 Ligand Binding Site [chemical binding]; other site 94122006821 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 94122006822 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 94122006823 Ligand Binding Site [chemical binding]; other site 94122006824 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 94122006825 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 94122006826 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 94122006827 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 94122006828 phosphate binding site [ion binding]; other site 94122006829 putative substrate binding pocket [chemical binding]; other site 94122006830 dimer interface [polypeptide binding]; other site 94122006831 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 94122006832 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 94122006833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122006834 homodimer interface [polypeptide binding]; other site 94122006835 catalytic residue [active] 94122006836 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 94122006837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122006838 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122006839 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 94122006840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122006841 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 94122006842 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122006843 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 94122006844 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; cd00305 94122006845 E-class dimer interface [polypeptide binding]; other site 94122006846 P-class dimer interface [polypeptide binding]; other site 94122006847 active site 94122006848 Cu2+ binding site [ion binding]; other site 94122006849 Zn2+ binding site [ion binding]; other site 94122006850 HTH-like domain; Region: HTH_21; pfam13276 94122006851 Integrase core domain; Region: rve; cl01316 94122006852 Integrase core domain; Region: rve_3; cl15866 94122006853 Quinolinate synthetase A protein; Region: NadA; cl00420 94122006854 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 94122006855 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 94122006856 E3 interaction surface; other site 94122006857 lipoyl attachment site [posttranslational modification]; other site 94122006858 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 94122006859 E3 interaction surface; other site 94122006860 lipoyl attachment site [posttranslational modification]; other site 94122006861 e3 binding domain; Region: E3_binding; pfam02817 94122006862 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 94122006863 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 94122006864 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 94122006865 alpha subunit interface [polypeptide binding]; other site 94122006866 TPP binding site [chemical binding]; other site 94122006867 heterodimer interface [polypeptide binding]; other site 94122006868 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 94122006869 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 94122006870 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 94122006871 tetramer interface [polypeptide binding]; other site 94122006872 TPP-binding site [chemical binding]; other site 94122006873 heterodimer interface [polypeptide binding]; other site 94122006874 phosphorylation loop region [posttranslational modification] 94122006875 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 94122006876 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 94122006877 putative active site [active] 94122006878 Zn binding site [ion binding]; other site 94122006879 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122006880 phosphoglucomutase; Validated; Region: PRK07564 94122006881 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 94122006882 active site 94122006883 substrate binding site [chemical binding]; other site 94122006884 metal binding site [ion binding]; metal-binding site 94122006885 SeqA protein; Region: SeqA; cl11470 94122006886 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 94122006887 acyl-CoA esterase; Provisional; Region: PRK10673 94122006888 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 94122006889 LexA regulated protein; Provisional; Region: PRK11675 94122006890 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122006891 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 94122006892 elongation factor P; Validated; Region: PRK00529 94122006893 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 94122006894 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 94122006895 RNA binding site [nucleotide binding]; other site 94122006896 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 94122006897 RNA binding site [nucleotide binding]; other site 94122006898 HTH-like domain; Region: HTH_21; pfam13276 94122006899 Integrase core domain; Region: rve; cl01316 94122006900 Integrase core domain; Region: rve_3; cl15866 94122006901 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 94122006902 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122006903 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 94122006904 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 94122006905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122006906 homodimer interface [polypeptide binding]; other site 94122006907 catalytic residue [active] 94122006908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122006909 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 94122006910 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122006911 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 94122006912 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 94122006913 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 94122006914 active site 94122006915 intersubunit interface [polypeptide binding]; other site 94122006916 catalytic residue [active] 94122006917 Dehydratase family; Region: ILVD_EDD; cl00340 94122006918 6-phosphogluconate dehydratase; Region: edd; TIGR01196 94122006919 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 94122006920 putative active site [active] 94122006921 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 94122006922 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 94122006923 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 94122006924 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 94122006925 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 94122006926 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 94122006927 putative active site [active] 94122006928 pyruvate kinase; Provisional; Region: PRK05826 94122006929 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 94122006930 domain interfaces; other site 94122006931 active site 94122006932 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 94122006933 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 94122006934 active site 94122006935 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 94122006936 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 94122006937 Helix-turn-helix domains; Region: HTH; cl00088 94122006938 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 94122006939 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 94122006940 active site 94122006941 Zn binding site [ion binding]; other site 94122006942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 94122006943 Smr domain; Region: Smr; cl02619 94122006944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 94122006945 SEC-C motif; Region: SEC-C; pfam02810 94122006946 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 94122006947 GAF domain; Region: GAF; cl15785 94122006948 PAS domain S-box; Region: sensory_box; TIGR00229 94122006949 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 94122006950 putative active site [active] 94122006951 heme pocket [chemical binding]; other site 94122006952 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122006953 metal binding site [ion binding]; metal-binding site 94122006954 active site 94122006955 I-site; other site 94122006956 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 94122006957 Protein of unknown function (DUF406); Region: DUF406; cl11449 94122006958 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 94122006959 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 94122006960 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 94122006961 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 94122006962 Ligand Binding Site [chemical binding]; other site 94122006963 Rhomboid family; Region: Rhomboid; cl11446 94122006964 excinuclease ABC subunit B; Provisional; Region: PRK05298 94122006965 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 94122006966 ATP binding site [chemical binding]; other site 94122006967 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 94122006968 nucleotide binding region [chemical binding]; other site 94122006969 ATP-binding site [chemical binding]; other site 94122006970 Ultra-violet resistance protein B; Region: UvrB; pfam12344 94122006971 UvrB/uvrC motif; Region: UVR; pfam02151 94122006972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122006973 active site 94122006974 I-site; other site 94122006975 metal binding site [ion binding]; metal-binding site 94122006976 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 94122006977 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122006978 electron transport complex protein RnfB; Provisional; Region: PRK05113 94122006979 Putative Fe-S cluster; Region: FeS; pfam04060 94122006980 4Fe-4S binding domain; Region: Fer4; cl02805 94122006981 electron transport complex protein RnfC; Provisional; Region: PRK05035 94122006982 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 94122006983 SLBB domain; Region: SLBB; pfam10531 94122006984 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 94122006985 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 94122006986 FMN-binding domain; Region: FMN_bind; cl01081 94122006987 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122006988 endonuclease III; Provisional; Region: PRK10702 94122006989 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 94122006990 minor groove reading motif; other site 94122006991 helix-hairpin-helix signature motif; other site 94122006992 substrate binding pocket [chemical binding]; other site 94122006993 active site 94122006994 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 94122006995 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 94122006996 active site 94122006997 catalytic residues [active] 94122006998 DNA binding site [nucleotide binding] 94122006999 Int/Topo IB signature motif; other site 94122007000 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 94122007001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 94122007002 DNA binding site [nucleotide binding] 94122007003 active site 94122007004 Int/Topo IB signature motif; other site 94122007005 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 94122007006 hypothetical protein; Provisional; Region: PRK06921 94122007007 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 94122007008 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 94122007009 Predicted transcriptional regulator [Transcription]; Region: COG2378 94122007010 WYL domain; Region: WYL; cl14852 94122007011 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122007012 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122007013 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 94122007014 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122007015 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122007016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122007017 sensor kinase CusS; Provisional; Region: PRK09835 94122007018 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 94122007019 dimer interface [polypeptide binding]; other site 94122007020 phosphorylation site [posttranslational modification] 94122007021 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 94122007022 ATP binding site [chemical binding]; other site 94122007023 Mg2+ binding site [ion binding]; other site 94122007024 G-X-G motif; other site 94122007025 Response regulator receiver domain; Region: Response_reg; pfam00072 94122007026 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 94122007027 active site 94122007028 phosphorylation site [posttranslational modification] 94122007029 intermolecular recognition site; other site 94122007030 dimerization interface [polypeptide binding]; other site 94122007031 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 94122007032 Response regulator receiver domain; Region: Response_reg; pfam00072 94122007033 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 94122007034 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 94122007035 putative substrate translocation pore; other site 94122007036 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 94122007037 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122007038 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007039 metal binding site [ion binding]; metal-binding site 94122007040 active site 94122007041 I-site; other site 94122007042 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 94122007043 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 94122007044 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 94122007045 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 94122007046 Phytase; Region: Phytase; pfam02333 94122007047 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 94122007048 Phytase; Region: Phytase; pfam02333 94122007049 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 94122007050 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 94122007051 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 94122007052 ABC transporter; Region: ABC_tran_2; pfam12848 94122007053 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 94122007054 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 94122007055 putative hydrophobic ligand binding site [chemical binding]; other site 94122007056 Restriction endonuclease; Region: Mrr_cat; cl00516 94122007057 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 94122007058 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122007059 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 94122007060 active site 94122007061 phosphorylation site [posttranslational modification] 94122007062 intermolecular recognition site; other site 94122007063 dimerization interface [polypeptide binding]; other site 94122007064 Response regulator receiver domain; Region: Response_reg; pfam00072 94122007065 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 94122007066 active site 94122007067 phosphorylation site [posttranslational modification] 94122007068 intermolecular recognition site; other site 94122007069 dimerization interface [polypeptide binding]; other site 94122007070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007071 metal binding site [ion binding]; metal-binding site 94122007072 active site 94122007073 I-site; other site 94122007074 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 94122007075 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 94122007076 active site 94122007077 phosphorylation site [posttranslational modification] 94122007078 intermolecular recognition site; other site 94122007079 dimerization interface [polypeptide binding]; other site 94122007080 CheB methylesterase; Region: CheB_methylest; pfam01339 94122007081 CheD chemotactic sensory transduction; Region: CheD; cl00810 94122007082 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 94122007083 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 94122007084 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 94122007085 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 94122007086 PAS fold; Region: PAS; pfam00989 94122007087 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 94122007088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122007089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122007090 dimer interface [polypeptide binding]; other site 94122007091 putative CheW interface [polypeptide binding]; other site 94122007092 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 94122007093 putative CheA interaction surface; other site 94122007094 chemotaxis protein CheA; Provisional; Region: PRK10547 94122007095 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 94122007096 putative binding surface; other site 94122007097 active site 94122007098 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 94122007099 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 94122007100 ATP binding site [chemical binding]; other site 94122007101 Mg2+ binding site [ion binding]; other site 94122007102 G-X-G motif; other site 94122007103 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 94122007104 Response regulator receiver domain; Region: Response_reg; pfam00072 94122007105 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 94122007106 active site 94122007107 phosphorylation site [posttranslational modification] 94122007108 intermolecular recognition site; other site 94122007109 dimerization interface [polypeptide binding]; other site 94122007110 Response regulator receiver domain; Region: Response_reg; pfam00072 94122007111 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 94122007112 active site 94122007113 phosphorylation site [posttranslational modification] 94122007114 intermolecular recognition site; other site 94122007115 dimerization interface [polypeptide binding]; other site 94122007116 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 94122007117 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 94122007118 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 94122007119 anti sigma factor interaction site; other site 94122007120 regulatory phosphorylation site [posttranslational modification]; other site 94122007121 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122007122 dimer interface [polypeptide binding]; other site 94122007123 putative CheW interface [polypeptide binding]; other site 94122007124 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 94122007125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122007126 CoA-ligase; Region: Ligase_CoA; cl02894 94122007127 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122007128 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 94122007129 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 94122007130 putative substrate translocation pore; other site 94122007131 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 94122007132 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122007133 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 94122007134 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 94122007135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 94122007136 Helix-turn-helix domains; Region: HTH; cl00088 94122007137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007138 metal binding site [ion binding]; metal-binding site 94122007139 active site 94122007140 I-site; other site 94122007141 putative metal dependent hydrolase; Provisional; Region: PRK11598 94122007142 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 94122007143 Sulfatase; Region: Sulfatase; cl10460 94122007144 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 94122007145 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 94122007146 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 94122007147 Helix-turn-helix domains; Region: HTH; cl00088 94122007148 Cation efflux family; Region: Cation_efflux; cl00316 94122007149 Cation efflux family; Region: Cation_efflux; cl00316 94122007150 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122007151 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 94122007152 dimer interface [polypeptide binding]; other site 94122007153 active site 94122007154 metal binding site [ion binding]; metal-binding site 94122007155 glutathione binding site [chemical binding]; other site 94122007156 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 94122007157 TMAO/DMSO reductase; Reviewed; Region: PRK05363 94122007158 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 94122007159 Moco binding site; other site 94122007160 metal coordination site [ion binding]; other site 94122007161 DNA recombination protein RmuC; Provisional; Region: PRK10361 94122007162 RmuC family; Region: RmuC; pfam02646 94122007163 lytic murein transglycosylase; Provisional; Region: PRK11619 94122007164 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 94122007165 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122007166 catalytic residue [active] 94122007167 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 94122007168 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 94122007169 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 94122007170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122007171 Coenzyme A binding pocket [chemical binding]; other site 94122007172 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 94122007173 Walker A motif; other site 94122007174 ATP binding site [chemical binding]; other site 94122007175 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 94122007176 Walker B motif; other site 94122007177 arginine finger; other site 94122007178 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 94122007179 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 94122007180 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 94122007181 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 94122007182 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 94122007183 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 94122007184 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 94122007185 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 94122007186 Family description; Region: UvrD_C_2; cl15862 94122007187 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 94122007188 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 94122007189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122007190 Family description; Region: UvrD_C_2; cl15862 94122007191 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 94122007192 S-adenosylmethionine binding site [chemical binding]; other site 94122007193 PAS domain; Region: PAS_9; pfam13426 94122007194 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 94122007195 putative active site [active] 94122007196 heme pocket [chemical binding]; other site 94122007197 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 94122007198 PAS domain; Region: PAS_9; pfam13426 94122007199 putative active site [active] 94122007200 heme pocket [chemical binding]; other site 94122007201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122007202 dimer interface [polypeptide binding]; other site 94122007203 putative CheW interface [polypeptide binding]; other site 94122007204 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 94122007205 active site 94122007206 catalytic site [active] 94122007207 substrate binding site [chemical binding]; other site 94122007208 Transcriptional regulators [Transcription]; Region: PurR; COG1609 94122007209 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 94122007210 DNA binding site [nucleotide binding] 94122007211 domain linker motif; other site 94122007212 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 94122007213 putative dimerization interface [polypeptide binding]; other site 94122007214 putative ligand binding site [chemical binding]; other site 94122007215 Chemotaxis phosphatase CheX; Region: CheX; cl15816 94122007216 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 94122007217 Cache domain; Region: Cache_2; cl07034 94122007218 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 94122007219 dimerization interface [polypeptide binding]; other site 94122007220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122007221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122007222 dimer interface [polypeptide binding]; other site 94122007223 putative CheW interface [polypeptide binding]; other site 94122007224 Uncharacterized conserved protein [Function unknown]; Region: COG3603 94122007225 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 94122007226 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 94122007227 dimerization domain swap beta strand [polypeptide binding]; other site 94122007228 regulatory protein interface [polypeptide binding]; other site 94122007229 active site 94122007230 regulatory phosphorylation site [posttranslational modification]; other site 94122007231 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 94122007232 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 94122007233 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 94122007234 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 94122007235 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 94122007236 HPr interaction site; other site 94122007237 glycerol kinase (GK) interaction site [polypeptide binding]; other site 94122007238 active site 94122007239 phosphorylation site [posttranslational modification] 94122007240 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 94122007241 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 94122007242 active site residue [active] 94122007243 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122007244 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 94122007245 putative GSH binding site (G-site) [chemical binding]; other site 94122007246 active site cysteine [active] 94122007247 putative C-terminal domain interface [polypeptide binding]; other site 94122007248 putative dimer interface [polypeptide binding]; other site 94122007249 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 94122007250 putative N-terminal domain interface [polypeptide binding]; other site 94122007251 putative dimer interface [polypeptide binding]; other site 94122007252 putative substrate binding pocket (H-site) [chemical binding]; other site 94122007253 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 94122007254 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122007255 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122007256 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 94122007257 LysE type translocator; Region: LysE; cl00565 94122007258 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 94122007259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122007260 DNA-binding site [nucleotide binding]; DNA binding site 94122007261 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 94122007262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122007263 homodimer interface [polypeptide binding]; other site 94122007264 catalytic residue [active] 94122007265 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 94122007266 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 94122007267 putative substrate translocation pore; other site 94122007268 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 94122007269 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 94122007270 PYR/PP interface [polypeptide binding]; other site 94122007271 dimer interface [polypeptide binding]; other site 94122007272 TPP binding site [chemical binding]; other site 94122007273 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 94122007274 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 94122007275 TPP-binding site [chemical binding]; other site 94122007276 dimer interface [polypeptide binding]; other site 94122007277 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 94122007278 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 94122007279 putative valine binding site [chemical binding]; other site 94122007280 dimer interface [polypeptide binding]; other site 94122007281 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 94122007282 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 94122007283 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 94122007284 putative dimer interface [polypeptide binding]; other site 94122007285 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 94122007286 active site 94122007287 multimer interface [polypeptide binding]; other site 94122007288 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 94122007289 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 94122007290 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122007291 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 94122007292 catalytic loop [active] 94122007293 iron binding site [ion binding]; other site 94122007294 chaperone protein HscA; Provisional; Region: hscA; PRK05183 94122007295 co-chaperone HscB; Provisional; Region: hscB; PRK05014 94122007296 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 94122007297 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 94122007298 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 94122007299 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 94122007300 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 94122007301 trimerization site [polypeptide binding]; other site 94122007302 active site 94122007303 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 94122007304 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 94122007305 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122007306 catalytic residue [active] 94122007307 Helix-turn-helix domains; Region: HTH; cl00088 94122007308 Rrf2 family protein; Region: rrf2_super; TIGR00738 94122007309 serine O-acetyltransferase; Region: cysE; TIGR01172 94122007310 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 94122007311 trimer interface [polypeptide binding]; other site 94122007312 active site 94122007313 substrate binding site [chemical binding]; other site 94122007314 CoA binding site [chemical binding]; other site 94122007315 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 94122007316 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 94122007317 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 94122007318 active site 94122007319 dimerization interface [polypeptide binding]; other site 94122007320 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 94122007321 FtsX-like permease family; Region: FtsX; cl15850 94122007322 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 94122007323 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 94122007324 Walker A/P-loop; other site 94122007325 ATP binding site [chemical binding]; other site 94122007326 Q-loop/lid; other site 94122007327 ABC transporter signature motif; other site 94122007328 Walker B; other site 94122007329 D-loop; other site 94122007330 H-loop/switch region; other site 94122007331 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 94122007332 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 94122007333 transcription-repair coupling factor; Provisional; Region: PRK10689 94122007334 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 94122007335 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 94122007336 ATP binding site [chemical binding]; other site 94122007337 putative Mg++ binding site [ion binding]; other site 94122007338 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 94122007339 nucleotide binding region [chemical binding]; other site 94122007340 ATP-binding site [chemical binding]; other site 94122007341 TRCF domain; Region: TRCF; cl04088 94122007342 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 94122007343 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 94122007344 Acylphosphatase; Region: Acylphosphatase; cl00551 94122007345 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 94122007346 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 94122007347 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 94122007348 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 94122007349 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 94122007350 HTH-like domain; Region: HTH_21; pfam13276 94122007351 Integrase core domain; Region: rve; cl01316 94122007352 Integrase core domain; Region: rve_3; cl15866 94122007353 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 94122007354 putative active site [active] 94122007355 Zn binding site [ion binding]; other site 94122007356 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 94122007357 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122007358 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122007359 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 94122007360 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 94122007361 Fumarase C-terminus; Region: Fumerase_C; cl00795 94122007362 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 94122007363 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 94122007364 chorismate binding enzyme; Region: Chorismate_bind; cl10555 94122007365 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 94122007366 putative active site [active] 94122007367 putative CoA binding site [chemical binding]; other site 94122007368 nudix motif; other site 94122007369 metal binding site [ion binding]; metal-binding site 94122007370 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 94122007371 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 94122007372 putative anticodon binding site; other site 94122007373 putative dimer interface [polypeptide binding]; other site 94122007374 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 94122007375 homodimer interface [polypeptide binding]; other site 94122007376 motif 1; other site 94122007377 motif 2; other site 94122007378 active site 94122007379 motif 3; other site 94122007380 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 94122007381 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 94122007382 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122007383 GAF domain; Region: GAF_2; pfam13185 94122007384 GAF domain; Region: GAF; cl15785 94122007385 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 94122007386 PAS domain; Region: PAS_9; pfam13426 94122007387 putative active site [active] 94122007388 heme pocket [chemical binding]; other site 94122007389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007390 metal binding site [ion binding]; metal-binding site 94122007391 active site 94122007392 I-site; other site 94122007393 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 94122007394 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 94122007395 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 94122007396 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 94122007397 glucose/galactose transporter; Region: gluP; TIGR01272 94122007398 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 94122007399 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 94122007400 active site 94122007401 catalytic site [active] 94122007402 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 94122007403 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 94122007404 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 94122007405 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 94122007406 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 94122007407 Ca binding site [ion binding]; other site 94122007408 active site 94122007409 homodimer interface [polypeptide binding]; other site 94122007410 catalytic site [active] 94122007411 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 94122007412 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 94122007413 active site 94122007414 catalytic site [active] 94122007415 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_1; cd08352 94122007416 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122007417 putative metal binding site [ion binding]; other site 94122007418 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 94122007419 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 94122007420 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 94122007421 active site 94122007422 catalytic residues [active] 94122007423 metal binding site [ion binding]; metal-binding site 94122007424 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 94122007425 active site 94122007426 DNA binding site [nucleotide binding] 94122007427 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 94122007428 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 94122007429 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 94122007430 putative active site [active] 94122007431 putative dimer interface [polypeptide binding]; other site 94122007432 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 94122007433 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 94122007434 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 94122007435 active site 94122007436 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 94122007437 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 94122007438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122007439 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122007440 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122007441 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122007442 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 94122007443 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 94122007444 conserved cys residue [active] 94122007445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122007446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122007447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122007448 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 94122007449 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 94122007450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122007451 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122007452 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 94122007453 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 94122007454 Predicted permease; Region: DUF318; pfam03773 94122007455 Low molecular weight phosphatase family; Region: LMWPc; cd00115 94122007456 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 94122007457 active site 94122007458 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 94122007459 dimerization interface [polypeptide binding]; other site 94122007460 putative DNA binding site [nucleotide binding]; other site 94122007461 putative Zn2+ binding site [ion binding]; other site 94122007462 Low molecular weight phosphatase family; Region: LMWPc; cd00115 94122007463 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 94122007464 active site 94122007465 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 94122007466 dimerization interface [polypeptide binding]; other site 94122007467 putative DNA binding site [nucleotide binding]; other site 94122007468 putative Zn2+ binding site [ion binding]; other site 94122007469 Predicted permease; Region: DUF318; pfam03773 94122007470 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 94122007471 glutathione (GSH) binding pocket [chemical binding]; other site 94122007472 active site residues [active] 94122007473 ATP binding pocket [chemical binding]; other site 94122007474 magnesium binding site [ion binding]; other site 94122007475 glycine rich loop; other site 94122007476 alanine rich loop; other site 94122007477 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 94122007478 4Fe-4S binding domain; Region: Fer4; cl02805 94122007479 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 94122007480 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 94122007481 putative [Fe4-S4] binding site [ion binding]; other site 94122007482 putative molybdopterin cofactor binding site [chemical binding]; other site 94122007483 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 94122007484 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 94122007485 putative molybdopterin cofactor binding site; other site 94122007486 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 94122007487 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 94122007488 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 94122007489 P loop; other site 94122007490 Nucleotide binding site [chemical binding]; other site 94122007491 DTAP/Switch II; other site 94122007492 Switch I; other site 94122007493 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 94122007494 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 94122007495 P loop; other site 94122007496 Nucleotide binding site [chemical binding]; other site 94122007497 DTAP/Switch II; other site 94122007498 Switch I; other site 94122007499 arsenical pump membrane protein; Provisional; Region: PRK15445 94122007500 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 94122007501 transmembrane helices; other site 94122007502 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 94122007503 ArsC family; Region: ArsC; pfam03960 94122007504 catalytic residues [active] 94122007505 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122007506 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122007507 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 94122007508 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 94122007509 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 94122007510 dimerization interface [polypeptide binding]; other site 94122007511 putative DNA binding site [nucleotide binding]; other site 94122007512 putative Zn2+ binding site [ion binding]; other site 94122007513 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 94122007514 active site 94122007515 Int/Topo IB signature motif; other site 94122007516 catalytic residues [active] 94122007517 DNA binding site [nucleotide binding] 94122007518 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122007519 Zn2+ binding site [ion binding]; other site 94122007520 Mg2+ binding site [ion binding]; other site 94122007521 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 94122007522 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 94122007523 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 94122007524 active site 94122007525 DNA binding site [nucleotide binding] 94122007526 Int/Topo IB signature motif; other site 94122007527 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 94122007528 non-specific DNA binding site [nucleotide binding]; other site 94122007529 salt bridge; other site 94122007530 sequence-specific DNA binding site [nucleotide binding]; other site 94122007531 Helix-turn-helix domains; Region: HTH; cl00088 94122007532 HTH-like domain; Region: HTH_21; pfam13276 94122007533 Integrase core domain; Region: rve; cl01316 94122007534 Integrase core domain; Region: rve_3; cl15866 94122007535 NnrS protein; Region: NnrS; cl01258 94122007536 Cytochrome c552; Region: Cytochrom_C552; pfam02335 94122007537 TIGR03503 family protein; Region: TIGR03503 94122007538 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 94122007539 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 94122007540 active site 94122007541 catalytic site [active] 94122007542 substrate binding site [chemical binding]; other site 94122007543 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 94122007544 RNA/DNA hybrid binding site [nucleotide binding]; other site 94122007545 active site 94122007546 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 94122007547 Helix-turn-helix domains; Region: HTH; cl00088 94122007548 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 94122007549 putative dimerization interface [polypeptide binding]; other site 94122007550 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 94122007551 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 94122007552 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 94122007553 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122007554 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 94122007555 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 94122007556 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122007557 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122007558 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122007559 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 94122007560 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122007561 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 94122007562 AsmA family; Region: AsmA; pfam05170 94122007563 AsmA-like C-terminal region; Region: AsmA_2; cl15864 94122007564 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 94122007565 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122007566 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 94122007567 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122007568 ATP binding site [chemical binding]; other site 94122007569 Mg++ binding site [ion binding]; other site 94122007570 motif III; other site 94122007571 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 94122007572 nucleotide binding region [chemical binding]; other site 94122007573 ATP-binding site [chemical binding]; other site 94122007574 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 94122007575 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 94122007576 substrate binding site [chemical binding]; other site 94122007577 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122007578 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122007579 Flagellin N-methylase; Region: FliB; cl00497 94122007580 Transglycosylase SLT domain; Region: SLT_2; pfam13406 94122007581 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 94122007582 YcgL domain; Region: YcgL; cl01189 94122007583 septum formation inhibitor; Reviewed; Region: minC; PRK04804 94122007584 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 94122007585 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 94122007586 cell division inhibitor MinD; Provisional; Region: PRK10818 94122007587 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 94122007588 Switch I; other site 94122007589 Switch II; other site 94122007590 Septum formation topological specificity factor MinE; Region: MinE; cl00538 94122007591 ribonuclease D; Provisional; Region: PRK10829 94122007592 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 94122007593 catalytic site [active] 94122007594 putative active site [active] 94122007595 putative substrate binding site [chemical binding]; other site 94122007596 HRDC domain; Region: HRDC; cl02578 94122007597 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 94122007598 AMP-binding enzyme; Region: AMP-binding; cl15778 94122007599 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122007600 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 94122007601 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122007602 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 94122007603 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 94122007604 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 94122007605 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; cd00384 94122007606 dimer interface [polypeptide binding]; other site 94122007607 active site 94122007608 Schiff base residues; other site 94122007609 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 94122007610 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 94122007611 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 94122007612 aminocyclopropanecarboxylate oxidase; Region: PLN02403 94122007613 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 94122007614 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 94122007615 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 94122007616 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 94122007617 GTP/Mg2+ binding site [chemical binding]; other site 94122007618 G4 box; other site 94122007619 G5 box; other site 94122007620 G1 box; other site 94122007621 Switch I region; other site 94122007622 G2 box; other site 94122007623 G3 box; other site 94122007624 Switch II region; other site 94122007625 Low molecular weight phosphatase family; Region: LMWPc; cd00115 94122007626 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 94122007627 active site 94122007628 DNA ligase; Provisional; Region: PRK09125 94122007629 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 94122007630 DNA binding site [nucleotide binding] 94122007631 active site 94122007632 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 94122007633 DNA binding site [nucleotide binding] 94122007634 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 94122007635 transcriptional regulator HdfR; Provisional; Region: PRK03601 94122007636 Helix-turn-helix domains; Region: HTH; cl00088 94122007637 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 94122007638 Protein of unknown function, DUF; Region: DUF413; cl10479 94122007639 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 94122007640 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122007641 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 94122007642 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 94122007643 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122007644 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 94122007645 metal binding site [ion binding]; metal-binding site 94122007646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007647 metal binding site [ion binding]; metal-binding site 94122007648 active site 94122007649 I-site; other site 94122007650 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 94122007651 active site 94122007652 catalytic site [active] 94122007653 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 94122007654 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 94122007655 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 94122007656 metal ion-dependent adhesion site (MIDAS); other site 94122007657 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 94122007658 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122007659 ligand binding site [chemical binding]; other site 94122007660 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 94122007661 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 94122007662 active site 94122007663 phosphorylation site [posttranslational modification] 94122007664 intermolecular recognition site; other site 94122007665 dimerization interface [polypeptide binding]; other site 94122007666 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 94122007667 DNA binding site [nucleotide binding] 94122007668 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 94122007669 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 94122007670 putative ligand binding site [chemical binding]; other site 94122007671 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 94122007672 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 94122007673 dimer interface [polypeptide binding]; other site 94122007674 phosphorylation site [posttranslational modification] 94122007675 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 94122007676 ATP binding site [chemical binding]; other site 94122007677 Mg2+ binding site [ion binding]; other site 94122007678 G-X-G motif; other site 94122007679 cystathionine beta-lyase; Provisional; Region: PRK09028 94122007680 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 94122007681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122007682 catalytic residue [active] 94122007683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 94122007684 CreA protein; Region: CreA; pfam05981 94122007685 putative chaperone; Provisional; Region: PRK11678 94122007686 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 94122007687 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 94122007688 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 94122007689 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 94122007690 putative active site [active] 94122007691 catalytic site [active] 94122007692 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 94122007693 domain interface [polypeptide binding]; other site 94122007694 active site 94122007695 catalytic site [active] 94122007696 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 94122007697 Ion transport protein; Region: Ion_trans; pfam00520 94122007698 Ion channel; Region: Ion_trans_2; cl11596 94122007699 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 94122007700 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_4; cd07268 94122007701 putative metal binding site [ion binding]; other site 94122007702 Peptidase family M23; Region: Peptidase_M23; pfam01551 94122007703 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 94122007704 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 94122007705 Nucleoid-associated protein [General function prediction only]; Region: COG3081 94122007706 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 94122007707 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 94122007708 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 94122007709 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 94122007710 Sulfatase; Region: Sulfatase; cl10460 94122007711 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 94122007712 active site 94122007713 FMN binding site [chemical binding]; other site 94122007714 substrate binding site [chemical binding]; other site 94122007715 homotetramer interface [polypeptide binding]; other site 94122007716 catalytic residue [active] 94122007717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122007718 Helix-turn-helix domains; Region: HTH; cl00088 94122007719 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 94122007720 dimerization interface [polypeptide binding]; other site 94122007721 PAS domain; Region: PAS_9; pfam13426 94122007722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007723 metal binding site [ion binding]; metal-binding site 94122007724 active site 94122007725 I-site; other site 94122007726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007727 metal binding site [ion binding]; metal-binding site 94122007728 active site 94122007729 I-site; other site 94122007730 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122007731 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 94122007732 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 94122007733 homodimer interface [polypeptide binding]; other site 94122007734 NAD binding pocket [chemical binding]; other site 94122007735 ATP binding pocket [chemical binding]; other site 94122007736 Mg binding site [ion binding]; other site 94122007737 active-site loop [active] 94122007738 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 94122007739 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 94122007740 substrate binding site [chemical binding]; other site 94122007741 ATP binding site [chemical binding]; other site 94122007742 ferrochelatase; Reviewed; Region: hemH; PRK00035 94122007743 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 94122007744 C-terminal domain interface [polypeptide binding]; other site 94122007745 active site 94122007746 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 94122007747 active site 94122007748 N-terminal domain interface [polypeptide binding]; other site 94122007749 adenylate kinase; Reviewed; Region: adk; PRK00279 94122007750 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 94122007751 AMP-binding site [chemical binding]; other site 94122007752 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 94122007753 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 94122007754 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 94122007755 heat shock protein 90; Provisional; Region: PRK05218 94122007756 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 94122007757 ATP binding site [chemical binding]; other site 94122007758 Mg2+ binding site [ion binding]; other site 94122007759 G-X-G motif; other site 94122007760 recombination protein RecR; Reviewed; Region: recR; PRK00076 94122007761 RecR protein; Region: RecR; pfam02132 94122007762 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 94122007763 putative active site [active] 94122007764 putative metal-binding site [ion binding]; other site 94122007765 tetramer interface [polypeptide binding]; other site 94122007766 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 94122007767 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 94122007768 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 94122007769 Walker A motif; other site 94122007770 ATP binding site [chemical binding]; other site 94122007771 Walker B motif; other site 94122007772 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122007773 arginine finger; other site 94122007774 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 94122007775 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 94122007776 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122007777 active site 94122007778 Protein of unknown function (DUF454); Region: DUF454; cl01063 94122007779 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 94122007780 Protein of unknown function (DUF692); Region: DUF692; cl01263 94122007781 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 94122007782 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 94122007783 FMN binding site [chemical binding]; other site 94122007784 active site 94122007785 catalytic residues [active] 94122007786 substrate binding site [chemical binding]; other site 94122007787 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 94122007788 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 94122007789 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 94122007790 active site 94122007791 metal binding site [ion binding]; metal-binding site 94122007792 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 94122007793 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 94122007794 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 94122007795 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 94122007796 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 94122007797 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 94122007798 active site 94122007799 Zn binding site [ion binding]; other site 94122007800 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 94122007801 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122007802 Transglycosylase SLT domain; Region: SLT_2; pfam13406 94122007803 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 94122007804 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122007805 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 94122007806 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 94122007807 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 94122007808 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122007809 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 94122007810 active site 94122007811 phosphorylation site [posttranslational modification] 94122007812 intermolecular recognition site; other site 94122007813 dimerization interface [polypeptide binding]; other site 94122007814 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 94122007815 S-adenosylmethionine binding site [chemical binding]; other site 94122007816 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 94122007817 RNA polymerase sigma factor; Provisional; Region: PRK11924 94122007818 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122007819 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 94122007820 DNA binding residues [nucleotide binding] 94122007821 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 94122007822 Cupin domain; Region: Cupin_2; cl09118 94122007823 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 94122007824 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 94122007825 hypothetical protein; Provisional; Region: PRK11770 94122007826 Domain of unknown function (DUF307); Region: DUF307; pfam03733 94122007827 Domain of unknown function (DUF307); Region: DUF307; pfam03733 94122007828 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122007829 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 94122007830 active site 94122007831 Zn binding site [ion binding]; other site 94122007832 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 94122007833 membrane-bound complex binding site; other site 94122007834 hinge residues; other site 94122007835 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 94122007836 AMP-binding domain protein; Validated; Region: PRK08315 94122007837 AMP-binding enzyme; Region: AMP-binding; cl15778 94122007838 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122007839 EVE domain; Region: EVE; cl00728 94122007840 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 94122007841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122007842 Helix-turn-helix domains; Region: HTH; cl00088 94122007843 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 94122007844 dimerization interface [polypeptide binding]; other site 94122007845 Cupin domain; Region: Cupin_2; cl09118 94122007846 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 94122007847 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 94122007848 dimer interface [polypeptide binding]; other site 94122007849 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 94122007850 active site 94122007851 Fe binding site [ion binding]; other site 94122007852 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 94122007853 MASE1; Region: MASE1; pfam05231 94122007854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122007855 metal binding site [ion binding]; metal-binding site 94122007856 active site 94122007857 I-site; other site 94122007858 maltose O-acetyltransferase; Provisional; Region: PRK10092 94122007859 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 94122007860 active site 94122007861 substrate binding site [chemical binding]; other site 94122007862 trimer interface [polypeptide binding]; other site 94122007863 CoA binding site [chemical binding]; other site 94122007864 LysE type translocator; Region: LysE; cl00565 94122007865 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122007866 Protein of unknown function, DUF482; Region: DUF482; pfam04339 94122007867 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 94122007868 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 94122007869 hypothetical protein; Provisional; Region: PRK06156 94122007870 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 94122007871 active site 94122007872 metal binding site [ion binding]; metal-binding site 94122007873 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 94122007874 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 94122007875 active site 94122007876 Zn binding site [ion binding]; other site 94122007877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122007878 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122007879 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 94122007880 putative FMN binding site [chemical binding]; other site 94122007881 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122007882 active site 94122007883 ATP binding site [chemical binding]; other site 94122007884 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122007885 substrate binding site [chemical binding]; other site 94122007886 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 94122007887 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122007888 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 94122007889 N-terminal plug; other site 94122007890 ligand-binding site [chemical binding]; other site 94122007891 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 94122007892 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 94122007893 ligand binding site [chemical binding]; other site 94122007894 flexible hinge region; other site 94122007895 Helix-turn-helix domains; Region: HTH; cl00088 94122007896 putative transporter; Provisional; Region: PRK03699 94122007897 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 94122007898 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 94122007899 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 94122007900 putative dimer interface [polypeptide binding]; other site 94122007901 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 94122007902 CoenzymeA binding site [chemical binding]; other site 94122007903 subunit interaction site [polypeptide binding]; other site 94122007904 PHB binding site; other site 94122007905 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 94122007906 CoenzymeA binding site [chemical binding]; other site 94122007907 subunit interaction site [polypeptide binding]; other site 94122007908 PHB binding site; other site 94122007909 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 94122007910 nucleotide binding site/active site [active] 94122007911 HIT family signature motif; other site 94122007912 catalytic residue [active] 94122007913 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 94122007914 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 94122007915 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 94122007916 protein binding site [polypeptide binding]; other site 94122007917 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 94122007918 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 94122007919 DNA binding residues [nucleotide binding] 94122007920 dimerization interface [polypeptide binding]; other site 94122007921 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 94122007922 Peptidase family M48; Region: Peptidase_M48; cl12018 94122007923 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 94122007924 active site pocket [active] 94122007925 oxyanion hole [active] 94122007926 catalytic triad [active] 94122007927 active site nucleophile [active] 94122007928 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 94122007929 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 94122007930 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 94122007931 AAA domain; Region: AAA_26; pfam13500 94122007932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122007933 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 94122007934 S-adenosylmethionine binding site [chemical binding]; other site 94122007935 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 94122007936 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 94122007937 substrate-cofactor binding pocket; other site 94122007938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122007939 catalytic residue [active] 94122007940 biotin synthase; Provisional; Region: PRK15108 94122007941 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 94122007942 FeS/SAM binding site; other site 94122007943 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 94122007944 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 94122007945 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 94122007946 inhibitor-cofactor binding pocket; inhibition site 94122007947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122007948 catalytic residue [active] 94122007949 Cache domain; Region: Cache_2; cl07034 94122007950 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 94122007951 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 94122007952 dimerization interface [polypeptide binding]; other site 94122007953 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122007954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122007955 dimer interface [polypeptide binding]; other site 94122007956 putative CheW interface [polypeptide binding]; other site 94122007957 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 94122007958 Na binding site [ion binding]; other site 94122007959 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 94122007960 PAS fold; Region: PAS_7; pfam12860 94122007961 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 94122007962 dimer interface [polypeptide binding]; other site 94122007963 phosphorylation site [posttranslational modification] 94122007964 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 94122007965 ATP binding site [chemical binding]; other site 94122007966 Mg2+ binding site [ion binding]; other site 94122007967 G-X-G motif; other site 94122007968 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122007969 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 94122007970 acetyl-CoA synthetase; Provisional; Region: PRK00174 94122007971 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 94122007972 AMP-binding enzyme; Region: AMP-binding; cl15778 94122007973 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122007974 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 94122007975 ATP binding site [chemical binding]; other site 94122007976 putative Mg++ binding site [ion binding]; other site 94122007977 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 94122007978 nucleotide binding region [chemical binding]; other site 94122007979 ATP-binding site [chemical binding]; other site 94122007980 Double zinc ribbon; Region: DZR; pfam12773 94122007981 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 94122007982 GSH binding site [chemical binding]; other site 94122007983 catalytic residues [active] 94122007984 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 94122007985 Tetratricopeptide repeat; Region: TPR_6; pfam13174 94122007986 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 94122007987 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122007988 ligand binding site [chemical binding]; other site 94122007989 translocation protein TolB; Provisional; Region: tolB; PRK04792 94122007990 TolB amino-terminal domain; Region: TolB_N; cl00639 94122007991 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122007992 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122007993 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122007994 Gram-negative bacterial tonB protein; Region: TonB; cl10048 94122007995 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 94122007996 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 94122007997 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 94122007998 active site 94122007999 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 94122008000 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 94122008001 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 94122008002 Helix-turn-helix domains; Region: HTH; cl00088 94122008003 Rrf2 family protein; Region: rrf2_super; TIGR00738 94122008004 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 94122008005 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122008006 ligand binding site [chemical binding]; other site 94122008007 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 94122008008 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 94122008009 dimer interface [polypeptide binding]; other site 94122008010 catalytic site [active] 94122008011 putative active site [active] 94122008012 putative substrate binding site [chemical binding]; other site 94122008013 peroxidase; Provisional; Region: PRK15000 94122008014 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 94122008015 dimer interface [polypeptide binding]; other site 94122008016 decamer (pentamer of dimers) interface [polypeptide binding]; other site 94122008017 catalytic triad [active] 94122008018 peroxidatic and resolving cysteines [active] 94122008019 Predicted permease [General function prediction only]; Region: COG2056 94122008020 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 94122008021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122008022 metal binding site [ion binding]; metal-binding site 94122008023 active site 94122008024 I-site; other site 94122008025 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122008026 active site 94122008027 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 94122008028 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 94122008029 dimerization interface [polypeptide binding]; other site 94122008030 putative ATP binding site [chemical binding]; other site 94122008031 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 94122008032 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 94122008033 active site 94122008034 substrate binding site [chemical binding]; other site 94122008035 cosubstrate binding site; other site 94122008036 catalytic site [active] 94122008037 UMP phosphatase; Provisional; Region: PRK10444 94122008038 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 94122008039 active site 94122008040 motif I; other site 94122008041 motif II; other site 94122008042 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 94122008043 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 94122008044 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 94122008045 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 94122008046 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122008047 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 94122008048 metal binding site [ion binding]; metal-binding site 94122008049 asparagine synthetase B; Provisional; Region: asnB; PRK09431 94122008050 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 94122008051 active site 94122008052 dimer interface [polypeptide binding]; other site 94122008053 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 94122008054 Ligand Binding Site [chemical binding]; other site 94122008055 Molecular Tunnel; other site 94122008056 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 94122008057 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 94122008058 active site 94122008059 nucleophile elbow; other site 94122008060 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122008061 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 94122008062 N-terminal plug; other site 94122008063 ligand-binding site [chemical binding]; other site 94122008064 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 94122008065 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 94122008066 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 94122008067 active site 94122008068 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 94122008069 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 94122008070 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 94122008071 active site 94122008072 phosphate binding residues; other site 94122008073 catalytic residues [active] 94122008074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008075 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 94122008076 NAD(P) binding pocket [chemical binding]; other site 94122008077 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 94122008078 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 94122008079 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 94122008080 dimer interface [polypeptide binding]; other site 94122008081 active site 94122008082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 94122008083 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 94122008084 NAD(P) binding site [chemical binding]; other site 94122008085 homotetramer interface [polypeptide binding]; other site 94122008086 homodimer interface [polypeptide binding]; other site 94122008087 active site 94122008088 Acyl transferase domain; Region: Acyl_transf_1; cl08282 94122008089 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 94122008090 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 94122008091 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 94122008092 dimer interface [polypeptide binding]; other site 94122008093 active site 94122008094 CoA binding pocket [chemical binding]; other site 94122008095 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 94122008096 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 94122008097 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 94122008098 Maf-like protein; Region: Maf; pfam02545 94122008099 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 94122008100 active site 94122008101 dimer interface [polypeptide binding]; other site 94122008102 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 94122008103 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 94122008104 motif II; other site 94122008105 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 94122008106 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 94122008107 RNA binding surface [nucleotide binding]; other site 94122008108 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 94122008109 active site 94122008110 ribonuclease E; Reviewed; Region: rne; PRK10811 94122008111 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 94122008112 homodimer interface [polypeptide binding]; other site 94122008113 oligonucleotide binding site [chemical binding]; other site 94122008114 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 94122008115 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122008116 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122008117 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 94122008118 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 94122008119 DNA-binding site [nucleotide binding]; DNA binding site 94122008120 RNA-binding motif; other site 94122008121 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 94122008122 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 94122008123 S-adenosylmethionine binding site [chemical binding]; other site 94122008124 exonuclease I; Provisional; Region: sbcB; PRK11779 94122008125 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 94122008126 active site 94122008127 catalytic site [active] 94122008128 substrate binding site [chemical binding]; other site 94122008129 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 94122008130 cytidine deaminase; Provisional; Region: PRK09027 94122008131 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 94122008132 active site 94122008133 catalytic motif [active] 94122008134 Zn binding site [ion binding]; other site 94122008135 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 94122008136 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 94122008137 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 94122008138 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122008139 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 94122008140 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122008141 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 94122008142 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 94122008143 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 94122008144 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 94122008145 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 94122008146 Trm112p-like protein; Region: Trm112p; cl01066 94122008147 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 94122008148 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 94122008149 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 94122008150 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122008151 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 94122008152 Walker A/P-loop; other site 94122008153 ATP binding site [chemical binding]; other site 94122008154 Q-loop/lid; other site 94122008155 ABC transporter signature motif; other site 94122008156 Walker B; other site 94122008157 D-loop; other site 94122008158 H-loop/switch region; other site 94122008159 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 94122008160 ComEC family competence protein; Provisional; Region: PRK11539 94122008161 Competence protein; Region: Competence; cl00471 94122008162 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 94122008163 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 94122008164 NnrS protein; Region: NnrS; cl01258 94122008165 Phosphate-starvation-inducible E; Region: PsiE; cl01264 94122008166 PilZ domain; Region: PilZ; cl01260 94122008167 ParA-like protein; Provisional; Region: PHA02518 94122008168 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 94122008169 P-loop; other site 94122008170 Magnesium ion binding site [ion binding]; other site 94122008171 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 94122008172 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 94122008173 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 94122008174 GAF domain; Region: GAF; cl15785 94122008175 Histidine kinase; Region: His_kinase; pfam06580 94122008176 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 94122008177 ATP binding site [chemical binding]; other site 94122008178 Mg2+ binding site [ion binding]; other site 94122008179 G-X-G motif; other site 94122008180 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 94122008181 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 94122008182 active site 94122008183 phosphorylation site [posttranslational modification] 94122008184 intermolecular recognition site; other site 94122008185 dimerization interface [polypeptide binding]; other site 94122008186 LytTr DNA-binding domain; Region: LytTR; cl04498 94122008187 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 94122008188 Carbon starvation protein CstA; Region: CstA; pfam02554 94122008189 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 94122008190 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 94122008191 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 94122008192 RNA pol II promoter Fmp27 protein domain; Region: Fmp27_WPPW; pfam10359 94122008193 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 94122008194 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 94122008195 dimerization interface [polypeptide binding]; other site 94122008196 active site 94122008197 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 94122008198 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 94122008199 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 94122008200 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 94122008201 ATP cone domain; Region: ATP-cone; pfam03477 94122008202 Class III ribonucleotide reductase; Region: RNR_III; cd01675 94122008203 effector binding site; other site 94122008204 active site 94122008205 Zn binding site [ion binding]; other site 94122008206 glycine loop; other site 94122008207 hypothetical protein; Provisional; Region: PRK10279 94122008208 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 94122008209 active site 94122008210 nucleophile elbow; other site 94122008211 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 94122008212 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122008213 ATP binding site [chemical binding]; other site 94122008214 Mg++ binding site [ion binding]; other site 94122008215 motif III; other site 94122008216 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 94122008217 nucleotide binding region [chemical binding]; other site 94122008218 ATP-binding site [chemical binding]; other site 94122008219 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 94122008220 Protein of unknown function DUF45; Region: DUF45; cl00636 94122008221 putative peptidase; Provisional; Region: PRK11649 94122008222 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 94122008223 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 94122008224 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 94122008225 Walker A/P-loop; other site 94122008226 ATP binding site [chemical binding]; other site 94122008227 Q-loop/lid; other site 94122008228 exonuclease SbcC; Region: sbcc; TIGR00618 94122008229 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 94122008230 ABC transporter signature motif; other site 94122008231 Walker B; other site 94122008232 D-loop; other site 94122008233 H-loop/switch region; other site 94122008234 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 94122008235 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 94122008236 active site 94122008237 metal binding site [ion binding]; metal-binding site 94122008238 DNA binding site [nucleotide binding] 94122008239 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 94122008240 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 94122008241 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122008242 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 94122008243 Helix-turn-helix domains; Region: HTH; cl00088 94122008244 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 94122008245 dimerization interface [polypeptide binding]; other site 94122008246 substrate binding pocket [chemical binding]; other site 94122008247 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 94122008248 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 94122008249 RNA binding surface [nucleotide binding]; other site 94122008250 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 94122008251 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122008252 PPIC-type PPIASE domain; Region: Rotamase; cl08278 94122008253 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122008254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122008255 metal binding site [ion binding]; metal-binding site 94122008256 active site 94122008257 I-site; other site 94122008258 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 94122008259 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 94122008260 TPR motif; other site 94122008261 binding surface 94122008262 Gram-negative bacterial tonB protein; Region: TonB; cl10048 94122008263 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 94122008264 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 94122008265 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 94122008266 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 94122008267 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 94122008268 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 94122008269 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 94122008270 trimer interface [polypeptide binding]; other site 94122008271 eyelet of channel; other site 94122008272 DNA polymerase II; Reviewed; Region: PRK05762 94122008273 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 94122008274 active site 94122008275 catalytic site [active] 94122008276 substrate binding site [chemical binding]; other site 94122008277 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 94122008278 active site 94122008279 metal-binding site 94122008280 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 94122008281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122008282 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 94122008283 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122008284 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 94122008285 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 94122008286 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 94122008287 Late competence development protein ComFB; Region: ComFB; pfam10719 94122008288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122008289 multiple promoter invertase; Provisional; Region: mpi; PRK13413 94122008290 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 94122008291 catalytic residues [active] 94122008292 catalytic nucleophile [active] 94122008293 Presynaptic Site I dimer interface [polypeptide binding]; other site 94122008294 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 94122008295 Synaptic Flat tetramer interface [polypeptide binding]; other site 94122008296 Synaptic Site I dimer interface [polypeptide binding]; other site 94122008297 DNA binding site [nucleotide binding] 94122008298 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 94122008299 DNA-binding interface [nucleotide binding]; DNA binding site 94122008300 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 94122008301 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122008302 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122008303 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 94122008304 Int/Topo IB signature motif; other site 94122008305 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 94122008306 methionine gamma-lyase; Provisional; Region: PRK06234 94122008307 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 94122008308 homodimer interface [polypeptide binding]; other site 94122008309 substrate-cofactor binding pocket; other site 94122008310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122008311 catalytic residue [active] 94122008312 hypothetical protein; Provisional; Region: PRK05415 94122008313 Domain of unknown function (DUF697); Region: DUF697; cl12064 94122008314 YcjX-like family, DUF463; Region: DUF463; cl01193 94122008315 PspC domain; Region: PspC; cl00864 94122008316 phage shock protein C; Region: phageshock_pspC; TIGR02978 94122008317 Phage shock protein B; Region: PspB; cl05946 94122008318 phage shock protein A; Region: phageshock_pspA; TIGR02977 94122008319 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 94122008320 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 94122008321 Walker A motif; other site 94122008322 ATP binding site [chemical binding]; other site 94122008323 Walker B motif; other site 94122008324 arginine finger; other site 94122008325 Helix-turn-helix domains; Region: HTH; cl00088 94122008326 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 94122008327 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 94122008328 peptide binding site [polypeptide binding]; other site 94122008329 dipeptide transporter permease DppB; Provisional; Region: PRK10914 94122008330 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 94122008331 dimer interface [polypeptide binding]; other site 94122008332 conserved gate region; other site 94122008333 putative PBP binding loops; other site 94122008334 ABC-ATPase subunit interface; other site 94122008335 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 94122008336 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 94122008337 dimer interface [polypeptide binding]; other site 94122008338 conserved gate region; other site 94122008339 putative PBP binding loops; other site 94122008340 ABC-ATPase subunit interface; other site 94122008341 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 94122008342 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 94122008343 Walker A/P-loop; other site 94122008344 ATP binding site [chemical binding]; other site 94122008345 Q-loop/lid; other site 94122008346 ABC transporter signature motif; other site 94122008347 Walker B; other site 94122008348 D-loop; other site 94122008349 H-loop/switch region; other site 94122008350 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 94122008351 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 94122008352 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 94122008353 Walker A/P-loop; other site 94122008354 ATP binding site [chemical binding]; other site 94122008355 Q-loop/lid; other site 94122008356 ABC transporter signature motif; other site 94122008357 Walker B; other site 94122008358 D-loop; other site 94122008359 H-loop/switch region; other site 94122008360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 94122008361 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 94122008362 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 94122008363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008364 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 94122008365 TOBE domain; Region: TOBE_2; cl01440 94122008366 periplasmic folding chaperone; Provisional; Region: PRK10788 94122008367 SurA N-terminal domain; Region: SurA_N_3; cl07813 94122008368 PPIC-type PPIASE domain; Region: Rotamase; cl08278 94122008369 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 94122008370 IHF dimer interface [polypeptide binding]; other site 94122008371 IHF - DNA interface [nucleotide binding]; other site 94122008372 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 94122008373 Found in ATP-dependent protease La (LON); Region: LON; smart00464 94122008374 Found in ATP-dependent protease La (LON); Region: LON; smart00464 94122008375 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 94122008376 Walker A motif; other site 94122008377 ATP binding site [chemical binding]; other site 94122008378 Walker B motif; other site 94122008379 arginine finger; other site 94122008380 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 94122008381 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 94122008382 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 94122008383 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 94122008384 Walker A motif; other site 94122008385 ATP binding site [chemical binding]; other site 94122008386 Walker B motif; other site 94122008387 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 94122008388 Clp protease; Region: CLP_protease; pfam00574 94122008389 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 94122008390 oligomer interface [polypeptide binding]; other site 94122008391 active site residues [active] 94122008392 trigger factor; Provisional; Region: tig; PRK01490 94122008393 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122008394 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 94122008395 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 94122008396 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 94122008397 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 94122008398 homodimer interface [polypeptide binding]; other site 94122008399 NADP binding site [chemical binding]; other site 94122008400 substrate binding site [chemical binding]; other site 94122008401 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 94122008402 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 94122008403 active site 94122008404 HIGH motif; other site 94122008405 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 94122008406 KMSKS motif; other site 94122008407 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 94122008408 tRNA binding surface [nucleotide binding]; other site 94122008409 anticodon binding site; other site 94122008410 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 94122008411 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 94122008412 substrate binding site [chemical binding]; other site 94122008413 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 94122008414 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 94122008415 putative active site [active] 94122008416 putative metal binding site [ion binding]; other site 94122008417 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 94122008418 active site 94122008419 dinuclear metal binding site [ion binding]; other site 94122008420 dimerization interface [polypeptide binding]; other site 94122008421 Yip1 domain; Region: Yip1; cl12048 94122008422 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 94122008423 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122008424 active site 94122008425 HIGH motif; other site 94122008426 nucleotide binding site [chemical binding]; other site 94122008427 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 94122008428 KMSKS motif; other site 94122008429 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 94122008430 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 94122008431 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 94122008432 G1 box; other site 94122008433 GTP/Mg2+ binding site [chemical binding]; other site 94122008434 Switch I region; other site 94122008435 G2 box; other site 94122008436 G3 box; other site 94122008437 Switch II region; other site 94122008438 G4 box; other site 94122008439 G5 box; other site 94122008440 Nucleoside recognition; Region: Gate; cl00486 94122008441 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 94122008442 Nucleoside recognition; Region: Gate; cl00486 94122008443 FeoA domain; Region: FeoA; cl00838 94122008444 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 94122008445 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 94122008446 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 94122008447 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 94122008448 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 94122008449 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 94122008450 heme-binding residues [chemical binding]; other site 94122008451 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 94122008452 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 94122008453 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 94122008454 heme-binding residues [chemical binding]; other site 94122008455 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 94122008456 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 94122008457 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 94122008458 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 94122008459 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 94122008460 putative uracil binding site [chemical binding]; other site 94122008461 putative active site [active] 94122008462 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 94122008463 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 94122008464 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 94122008465 active site 94122008466 Zn binding site [ion binding]; other site 94122008467 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 94122008468 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 94122008469 Helix-turn-helix domains; Region: HTH; cl00088 94122008470 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 94122008471 putative heme binding pocket [chemical binding]; other site 94122008472 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 94122008473 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 94122008474 Glycerate kinase family; Region: Gly_kinase; cl00841 94122008475 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 94122008476 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 94122008477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 94122008478 catalytic residue [active] 94122008479 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; cl00038 94122008480 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 94122008481 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 94122008482 classical (c) SDRs; Region: SDR_c; cd05233 94122008483 NAD(P) binding site [chemical binding]; other site 94122008484 active site 94122008485 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 94122008486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122008487 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 94122008488 DNA binding site [nucleotide binding] 94122008489 active site 94122008490 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 94122008491 trimer interface [polypeptide binding]; other site 94122008492 active site 94122008493 substrate binding site [chemical binding]; other site 94122008494 CoA binding site [chemical binding]; other site 94122008495 Cupin domain; Region: Cupin_2; cl09118 94122008496 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122008497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122008498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122008499 AzlC protein; Region: AzlC; cl00570 94122008500 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 94122008501 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 94122008502 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 94122008503 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 94122008504 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 94122008505 active site 94122008506 dimer interface [polypeptide binding]; other site 94122008507 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 94122008508 fructokinase; Reviewed; Region: PRK09557 94122008509 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 94122008510 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 94122008511 dimer interface [polypeptide binding]; other site 94122008512 active site 94122008513 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 94122008514 putative active site [active] 94122008515 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 94122008516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008517 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 94122008518 Helix-turn-helix domains; Region: HTH; cl00088 94122008519 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 94122008520 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 94122008521 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 94122008522 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 94122008523 ligand-binding site [chemical binding]; other site 94122008524 Helix-turn-helix domains; Region: HTH; cl00088 94122008525 WYL domain; Region: WYL; cl14852 94122008526 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 94122008527 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 94122008528 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122008529 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 94122008530 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 94122008531 active site 94122008532 substrate binding site [chemical binding]; other site 94122008533 metal binding site [ion binding]; metal-binding site 94122008534 Integral membrane protein TerC family; Region: TerC; cl10468 94122008535 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 94122008536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008537 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 94122008538 NAD(P) binding site [chemical binding]; other site 94122008539 active site 94122008540 peptide synthase; Provisional; Region: PRK09274 94122008541 AMP-binding enzyme; Region: AMP-binding; cl15778 94122008542 haloalkane dehalogenase; Provisional; Region: PRK03592 94122008543 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 94122008544 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 94122008545 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 94122008546 dimer interface [polypeptide binding]; other site 94122008547 active site 94122008548 CoA binding pocket [chemical binding]; other site 94122008549 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 94122008550 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 94122008551 hypothetical protein; Provisional; Region: PRK11295 94122008552 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 94122008553 BCCT family transporter; Region: BCCT; cl00569 94122008554 Protein of unknown function (DUF502); Region: DUF502; cl01107 94122008555 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 94122008556 dimer interface [polypeptide binding]; other site 94122008557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122008558 metal binding site [ion binding]; metal-binding site 94122008559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122008560 Helix-turn-helix domains; Region: HTH; cl00088 94122008561 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 94122008562 putative effector binding pocket; other site 94122008563 dimerization interface [polypeptide binding]; other site 94122008564 EamA-like transporter family; Region: EamA; cl01037 94122008565 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122008566 EamA-like transporter family; Region: EamA; cl01037 94122008567 putative acetyltransferase; Provisional; Region: PRK03624 94122008568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122008569 Coenzyme A binding pocket [chemical binding]; other site 94122008570 transcriptional regulator PhoU; Provisional; Region: PRK11115 94122008571 PhoU domain; Region: PhoU; pfam01895 94122008572 PhoU domain; Region: PhoU; pfam01895 94122008573 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 94122008574 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 94122008575 Walker A/P-loop; other site 94122008576 ATP binding site [chemical binding]; other site 94122008577 Q-loop/lid; other site 94122008578 ABC transporter signature motif; other site 94122008579 Walker B; other site 94122008580 D-loop; other site 94122008581 H-loop/switch region; other site 94122008582 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 94122008583 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 94122008584 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 94122008585 dimer interface [polypeptide binding]; other site 94122008586 conserved gate region; other site 94122008587 putative PBP binding loops; other site 94122008588 ABC-ATPase subunit interface; other site 94122008589 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 94122008590 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 94122008591 conserved gate region; other site 94122008592 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 94122008593 ABC-ATPase subunit interface; other site 94122008594 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 94122008595 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 94122008596 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 94122008597 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 94122008598 EamA-like transporter family; Region: EamA; cl01037 94122008599 EamA-like transporter family; Region: EamA; cl01037 94122008600 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 94122008601 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 94122008602 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_24; cd09012 94122008603 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122008604 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 94122008605 LysE type translocator; Region: LysE; cl00565 94122008606 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 94122008607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008608 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 94122008609 active site 94122008610 catalytic residues [active] 94122008611 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 94122008612 PA/subtilisin-like domain interface [polypeptide binding]; other site 94122008613 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122008614 catalytic residues [active] 94122008615 SseB protein; Region: SseB; cl06279 94122008616 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 94122008617 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 94122008618 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 94122008619 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 94122008620 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122008621 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 94122008622 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 94122008623 Walker A/P-loop; other site 94122008624 ATP binding site [chemical binding]; other site 94122008625 Q-loop/lid; other site 94122008626 ABC transporter signature motif; other site 94122008627 Walker B; other site 94122008628 D-loop; other site 94122008629 H-loop/switch region; other site 94122008630 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 94122008631 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 94122008632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122008633 Helix-turn-helix domains; Region: HTH; cl00088 94122008634 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 94122008635 DNA binding site [nucleotide binding] 94122008636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122008637 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 94122008638 PAS domain S-box; Region: sensory_box; TIGR00229 94122008639 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 94122008640 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122008641 metal binding site [ion binding]; metal-binding site 94122008642 active site 94122008643 I-site; other site 94122008644 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 94122008645 FAD binding domain; Region: FAD_binding_4; pfam01565 94122008646 Berberine and berberine like; Region: BBE; pfam08031 94122008647 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122008648 EamA-like transporter family; Region: EamA; cl01037 94122008649 EamA-like transporter family; Region: EamA; cl01037 94122008650 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 94122008651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122008652 Walker A/P-loop; other site 94122008653 ATP binding site [chemical binding]; other site 94122008654 Q-loop/lid; other site 94122008655 ABC transporter signature motif; other site 94122008656 Walker B; other site 94122008657 D-loop; other site 94122008658 H-loop/switch region; other site 94122008659 ABC transporter; Region: ABC_tran_2; pfam12848 94122008660 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 94122008661 copper exporting ATPase; Provisional; Region: copA; PRK10671 94122008662 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 94122008663 metal-binding site [ion binding] 94122008664 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 94122008665 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122008666 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 94122008667 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 94122008668 DNA binding residues [nucleotide binding] 94122008669 dimer interface [polypeptide binding]; other site 94122008670 copper binding site [ion binding]; other site 94122008671 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122008672 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 94122008673 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 94122008674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008675 NAD(P) binding site [chemical binding]; other site 94122008676 active site 94122008677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008678 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 94122008679 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 94122008680 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 94122008681 substrate binding site [chemical binding]; other site 94122008682 oxyanion hole (OAH) forming residues; other site 94122008683 trimer interface [polypeptide binding]; other site 94122008684 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 94122008685 enoyl-CoA hydratase; Provisional; Region: PRK09076 94122008686 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 94122008687 substrate binding site [chemical binding]; other site 94122008688 oxyanion hole (OAH) forming residues; other site 94122008689 trimer interface [polypeptide binding]; other site 94122008690 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 94122008691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 94122008692 active site 94122008693 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 94122008694 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 94122008695 tetrameric interface [polypeptide binding]; other site 94122008696 NAD binding site [chemical binding]; other site 94122008697 catalytic residues [active] 94122008698 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 94122008699 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 94122008700 dimer interface [polypeptide binding]; other site 94122008701 active site 94122008702 homoserine O-succinyltransferase; Provisional; Region: PRK05368 94122008703 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 94122008704 proposed active site lysine [active] 94122008705 conserved cys residue [active] 94122008706 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 94122008707 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 94122008708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008709 NAD(P) binding site [chemical binding]; other site 94122008710 active site 94122008711 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 94122008712 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 94122008713 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 94122008714 maleylacetoacetate isomerase; Region: maiA; TIGR01262 94122008715 C-terminal domain interface [polypeptide binding]; other site 94122008716 GSH binding site (G-site) [chemical binding]; other site 94122008717 putative dimer interface [polypeptide binding]; other site 94122008718 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 94122008719 dimer interface [polypeptide binding]; other site 94122008720 N-terminal domain interface [polypeptide binding]; other site 94122008721 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 94122008722 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 94122008723 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 94122008724 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 94122008725 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 94122008726 putative aromatic amino acid binding site; other site 94122008727 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 94122008728 Walker A motif; other site 94122008729 ATP binding site [chemical binding]; other site 94122008730 Walker B motif; other site 94122008731 arginine finger; other site 94122008732 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_a; cd00913 94122008733 aromatic arch; other site 94122008734 DCoH dimer interaction site [polypeptide binding]; other site 94122008735 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 94122008736 DCoH tetramer interaction site [polypeptide binding]; other site 94122008737 substrate binding site [chemical binding]; other site 94122008738 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 94122008739 cofactor binding site; other site 94122008740 metal binding site [ion binding]; metal-binding site 94122008741 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 94122008742 active site 94122008743 tetramer interface; other site 94122008744 UDP-glucose 4-epimerase; Region: PLN02240 94122008745 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 94122008746 NAD binding site [chemical binding]; other site 94122008747 homodimer interface [polypeptide binding]; other site 94122008748 active site 94122008749 substrate binding site [chemical binding]; other site 94122008750 ferredoxin-type protein; Provisional; Region: PRK10194 94122008751 4Fe-4S binding domain; Region: Fer4; cl02805 94122008752 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 94122008753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122008754 Helix-turn-helix domains; Region: HTH; cl00088 94122008755 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 94122008756 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 94122008757 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 94122008758 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 94122008759 putative active site [active] 94122008760 fructokinase; Reviewed; Region: PRK09557 94122008761 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 94122008762 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 94122008763 active site 94122008764 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 94122008765 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 94122008766 NADP binding site [chemical binding]; other site 94122008767 active site 94122008768 putative substrate binding site [chemical binding]; other site 94122008769 putative hydrolase; Validated; Region: PRK09248 94122008770 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 94122008771 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 94122008772 ATP binding site [chemical binding]; other site 94122008773 putative Mg++ binding site [ion binding]; other site 94122008774 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 94122008775 nucleotide binding region [chemical binding]; other site 94122008776 ATP-binding site [chemical binding]; other site 94122008777 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122008778 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 94122008779 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 94122008780 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 94122008781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122008782 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 94122008783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122008784 metal binding site [ion binding]; metal-binding site 94122008785 active site 94122008786 I-site; other site 94122008787 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 94122008788 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 94122008789 Ligand Binding Site [chemical binding]; other site 94122008790 TilS substrate binding domain; Region: TilS; pfam09179 94122008791 B3/4 domain; Region: B3_4; cl11458 94122008792 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 94122008793 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 94122008794 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 94122008795 generic binding surface II; other site 94122008796 generic binding surface I; other site 94122008797 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 94122008798 RNA/DNA hybrid binding site [nucleotide binding]; other site 94122008799 active site 94122008800 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 94122008801 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 94122008802 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 94122008803 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 94122008804 active site 94122008805 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 94122008806 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 94122008807 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 94122008808 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 94122008809 trimer interface [polypeptide binding]; other site 94122008810 active site 94122008811 UDP-GlcNAc binding site [chemical binding]; other site 94122008812 lipid binding site [chemical binding]; lipid-binding site 94122008813 periplasmic chaperone; Provisional; Region: PRK10780 94122008814 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 94122008815 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 94122008816 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122008817 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122008818 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122008819 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122008820 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 94122008821 Surface antigen; Region: Bac_surface_Ag; cl03097 94122008822 zinc metallopeptidase RseP; Provisional; Region: PRK10779 94122008823 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 94122008824 active site 94122008825 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 94122008826 protein binding site [polypeptide binding]; other site 94122008827 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 94122008828 protein binding site [polypeptide binding]; other site 94122008829 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 94122008830 putative substrate binding region [chemical binding]; other site 94122008831 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 94122008832 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 94122008833 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 94122008834 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 94122008835 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 94122008836 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; cl00230 94122008837 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 94122008838 catalytic residue [active] 94122008839 putative FPP diphosphate binding site; other site 94122008840 putative FPP binding hydrophobic cleft; other site 94122008841 dimer interface [polypeptide binding]; other site 94122008842 putative IPP diphosphate binding site; other site 94122008843 ribosome recycling factor; Reviewed; Region: frr; PRK00083 94122008844 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 94122008845 hinge region; other site 94122008846 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 94122008847 putative nucleotide binding site [chemical binding]; other site 94122008848 uridine monophosphate binding site [chemical binding]; other site 94122008849 homohexameric interface [polypeptide binding]; other site 94122008850 elongation factor Ts; Provisional; Region: tsf; PRK09377 94122008851 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 94122008852 Elongation factor TS; Region: EF_TS; pfam00889 94122008853 Elongation factor TS; Region: EF_TS; pfam00889 94122008854 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 94122008855 rRNA interaction site [nucleotide binding]; other site 94122008856 S8 interaction site; other site 94122008857 putative laminin-1 binding site; other site 94122008858 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 94122008859 active site 94122008860 PII uridylyl-transferase; Provisional; Region: PRK05007 94122008861 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 94122008862 metal binding triad; other site 94122008863 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 94122008864 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122008865 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 94122008866 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 94122008867 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 94122008868 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 94122008869 trimer interface [polypeptide binding]; other site 94122008870 active site 94122008871 substrate binding site [chemical binding]; other site 94122008872 CoA binding site [chemical binding]; other site 94122008873 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 94122008874 GAF domain; Region: GAF; cl15785 94122008875 GAF domain; Region: GAF_2; pfam13185 94122008876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122008877 Zn2+ binding site [ion binding]; other site 94122008878 Mg2+ binding site [ion binding]; other site 94122008879 FOG: CBS domain [General function prediction only]; Region: COG0517 94122008880 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 94122008881 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 94122008882 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 94122008883 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 94122008884 putative active site [active] 94122008885 putative substrate binding site [chemical binding]; other site 94122008886 putative cosubstrate binding site; other site 94122008887 catalytic site [active] 94122008888 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 94122008889 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 94122008890 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 94122008891 active site turn [active] 94122008892 phosphorylation site [posttranslational modification] 94122008893 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122008894 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 94122008895 probable active site [active] 94122008896 tRNA pseudouridine synthase C; Region: DUF446; cl01187 94122008897 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 94122008898 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 94122008899 Protein of unknown function (DUF962); Region: DUF962; cl01879 94122008900 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 94122008901 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 94122008902 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 94122008903 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 94122008904 Syd protein (SUKH-2); Region: Syd; cl06405 94122008905 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 94122008906 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 94122008907 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 94122008908 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 94122008909 SpoOM protein; Region: Spo0M; pfam07070 94122008910 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 94122008911 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 94122008912 Winged helix-turn helix; Region: HTH_29; pfam13551 94122008913 Helix-turn-helix domains; Region: HTH; cl00088 94122008914 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 94122008915 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 94122008916 active site 94122008917 Acyl transferase domain; Region: Acyl_transf_1; cl08282 94122008918 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122008919 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122008920 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122008921 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122008922 Phosphopantetheine attachment site; Region: PP-binding; cl09936 94122008923 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 94122008924 putative NADP binding site [chemical binding]; other site 94122008925 active site 94122008926 Acyl transferase domain; Region: Acyl_transf_1; cl08282 94122008927 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 94122008928 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 94122008929 active site 94122008930 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 94122008931 active site 94122008932 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 94122008933 dimer interface [polypeptide binding]; other site 94122008934 active site 2 [active] 94122008935 active site 1 [active] 94122008936 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 94122008937 active site 1 [active] 94122008938 dimer interface [polypeptide binding]; other site 94122008939 active site 2 [active] 94122008940 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 94122008941 FMN binding site [chemical binding]; other site 94122008942 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 94122008943 substrate binding site [chemical binding]; other site 94122008944 putative catalytic residue [active] 94122008945 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 94122008946 non-specific DNA binding site [nucleotide binding]; other site 94122008947 salt bridge; other site 94122008948 sequence-specific DNA binding site [nucleotide binding]; other site 94122008949 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122008950 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122008951 hypothetical protein; Provisional; Region: PRK12361 94122008952 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 94122008953 active site 94122008954 catalytic residues [active] 94122008955 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 94122008956 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122008957 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 94122008958 Walker A motif; other site 94122008959 ATP binding site [chemical binding]; other site 94122008960 Walker B motif; other site 94122008961 arginine finger; other site 94122008962 Helix-turn-helix domains; Region: HTH; cl00088 94122008963 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 94122008964 BON domain; Region: BON; cl02771 94122008965 BON domain; Region: BON; cl02771 94122008966 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 94122008967 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 94122008968 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 94122008969 ligand binding site [chemical binding]; other site 94122008970 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 94122008971 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 94122008972 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 94122008973 putative active site [active] 94122008974 Zn binding site [ion binding]; other site 94122008975 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 94122008976 Helix-turn-helix domains; Region: HTH; cl00088 94122008977 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 94122008978 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 94122008979 putative substrate translocation pore; other site 94122008980 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 94122008981 PhnA protein; Region: PhnA; pfam03831 94122008982 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 94122008983 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 94122008984 N-terminal plug; other site 94122008985 ligand-binding site [chemical binding]; other site 94122008986 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 94122008987 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122008988 Helix-turn-helix domains; Region: HTH; cl00088 94122008989 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122008990 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 94122008991 putative C-terminal domain interface [polypeptide binding]; other site 94122008992 putative GSH binding site (G-site) [chemical binding]; other site 94122008993 putative dimer interface [polypeptide binding]; other site 94122008994 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 94122008995 putative N-terminal domain interface [polypeptide binding]; other site 94122008996 putative dimer interface [polypeptide binding]; other site 94122008997 putative substrate binding pocket (H-site) [chemical binding]; other site 94122008998 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 94122008999 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 94122009000 C-terminal domain interface [polypeptide binding]; other site 94122009001 GSH binding site (G-site) [chemical binding]; other site 94122009002 dimer interface [polypeptide binding]; other site 94122009003 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 94122009004 N-terminal domain interface [polypeptide binding]; other site 94122009005 putative dimer interface [polypeptide binding]; other site 94122009006 active site 94122009007 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 94122009008 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 94122009009 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 94122009010 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 94122009011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009012 Uncharacterized conserved protein [Function unknown]; Region: COG3349 94122009013 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 94122009014 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 94122009015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122009016 metal binding site [ion binding]; metal-binding site 94122009017 active site 94122009018 I-site; other site 94122009019 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122009020 EamA-like transporter family; Region: EamA; cl01037 94122009021 EamA-like transporter family; Region: EamA; cl01037 94122009022 YfaZ precursor; Region: YfaZ; pfam07437 94122009023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122009024 Coenzyme A binding pocket [chemical binding]; other site 94122009025 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 94122009026 MgtE intracellular N domain; Region: MgtE_N; cl15244 94122009027 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 94122009028 Divalent cation transporter; Region: MgtE; cl00786 94122009029 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 94122009030 catalytic residues [active] 94122009031 dimer interface [polypeptide binding]; other site 94122009032 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 94122009033 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 94122009034 active site 94122009035 Zn binding site [ion binding]; other site 94122009036 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 94122009037 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 94122009038 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 94122009039 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 94122009040 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 94122009041 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 94122009042 dimer interface [polypeptide binding]; other site 94122009043 phosphorylation site [posttranslational modification] 94122009044 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 94122009045 ATP binding site [chemical binding]; other site 94122009046 Mg2+ binding site [ion binding]; other site 94122009047 G-X-G motif; other site 94122009048 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 94122009049 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 94122009050 active site 94122009051 phosphorylation site [posttranslational modification] 94122009052 intermolecular recognition site; other site 94122009053 dimerization interface [polypeptide binding]; other site 94122009054 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 94122009055 DNA binding site [nucleotide binding] 94122009056 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 94122009057 trimer interface [polypeptide binding]; other site 94122009058 eyelet of channel; other site 94122009059 Putative exonuclease, RdgC; Region: RdgC; cl01122 94122009060 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 94122009061 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 94122009062 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 94122009063 protein binding site [polypeptide binding]; other site 94122009064 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 94122009065 binding surface 94122009066 TPR motif; other site 94122009067 Tetratricopeptide repeat; Region: TPR_12; pfam13424 94122009068 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 94122009069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122009070 metal binding site [ion binding]; metal-binding site 94122009071 active site 94122009072 I-site; other site 94122009073 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 94122009074 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 94122009075 flap endonuclease-like protein; Provisional; Region: PRK09482 94122009076 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 94122009077 active site 94122009078 metal binding site 1 [ion binding]; metal-binding site 94122009079 putative 5' ssDNA interaction site; other site 94122009080 metal binding site 3; metal-binding site 94122009081 metal binding site 2 [ion binding]; metal-binding site 94122009082 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 94122009083 putative DNA binding site [nucleotide binding]; other site 94122009084 putative metal binding site [ion binding]; other site 94122009085 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 94122009086 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 94122009087 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 94122009088 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 94122009089 tartrate dehydrogenase; Provisional; Region: PRK08194 94122009090 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 94122009091 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 94122009092 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 94122009093 Protein of unknown function (DUF423); Region: DUF423; cl01008 94122009094 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 94122009095 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 94122009096 Helix-turn-helix domains; Region: HTH; cl00088 94122009097 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 94122009098 dimerization interface [polypeptide binding]; other site 94122009099 substrate binding pocket [chemical binding]; other site 94122009100 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 94122009101 THUMP domain; Region: THUMP; cl12076 94122009102 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 94122009103 Ligand Binding Site [chemical binding]; other site 94122009104 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 94122009105 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 94122009106 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 94122009107 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122009108 ligand binding site [chemical binding]; other site 94122009109 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 94122009110 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 94122009111 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 94122009112 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 94122009113 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 94122009114 substrate binding pocket [chemical binding]; other site 94122009115 chain length determination region; other site 94122009116 substrate-Mg2+ binding site; other site 94122009117 catalytic residues [active] 94122009118 aspartate-rich region 1; other site 94122009119 active site lid residues [active] 94122009120 aspartate-rich region 2; other site 94122009121 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 94122009122 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 94122009123 TPP-binding site; other site 94122009124 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 94122009125 PYR/PP interface [polypeptide binding]; other site 94122009126 dimer interface [polypeptide binding]; other site 94122009127 TPP binding site [chemical binding]; other site 94122009128 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 94122009129 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 94122009130 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 94122009131 dimer interface [polypeptide binding]; other site 94122009132 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 94122009133 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 94122009134 L-lactate permease; Region: Lactate_perm; cl00701 94122009135 glycolate transporter; Provisional; Region: PRK09695 94122009136 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 94122009137 FAD binding domain; Region: FAD_binding_4; pfam01565 94122009138 4Fe-4S binding domain; Region: Fer4; cl02805 94122009139 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 94122009140 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 94122009141 Cysteine-rich domain; Region: CCG; pfam02754 94122009142 Cysteine-rich domain; Region: CCG; pfam02754 94122009143 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 94122009144 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 94122009145 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 94122009146 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 94122009147 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 94122009148 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 94122009149 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122009150 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 94122009151 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 94122009152 voltage-gated potassium channel; Provisional; Region: PRK10537 94122009153 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 94122009154 active site 94122009155 catalytic residues [active] 94122009156 DNA binding site [nucleotide binding] 94122009157 Int/Topo IB signature motif; other site 94122009158 Putative phage integrase; Region: Phage_Integr_2; pfam13009 94122009159 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 94122009160 dinuclear metal binding motif [ion binding]; other site 94122009161 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 94122009162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122009163 Family description; Region: UvrD_C_2; cl15862 94122009164 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 94122009165 MatE; Region: MatE; cl10513 94122009166 MatE; Region: MatE; cl10513 94122009167 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 94122009168 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122009169 putative substrate translocation pore; other site 94122009170 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 94122009171 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 94122009172 substrate binding pocket [chemical binding]; other site 94122009173 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122009174 membrane-bound complex binding site; other site 94122009175 hinge residues; other site 94122009176 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 94122009177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122009178 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 94122009179 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 94122009180 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 94122009181 ATP binding site [chemical binding]; other site 94122009182 Mg++ binding site [ion binding]; other site 94122009183 motif III; other site 94122009184 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 94122009185 nucleotide binding region [chemical binding]; other site 94122009186 ATP-binding site [chemical binding]; other site 94122009187 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 94122009188 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 94122009189 PAS fold; Region: PAS_3; pfam08447 94122009190 putative active site [active] 94122009191 heme pocket [chemical binding]; other site 94122009192 PAS fold; Region: PAS_3; pfam08447 94122009193 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 94122009194 PAS domain; Region: PAS_9; pfam13426 94122009195 putative active site [active] 94122009196 heme pocket [chemical binding]; other site 94122009197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122009198 metal binding site [ion binding]; metal-binding site 94122009199 active site 94122009200 I-site; other site 94122009201 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 94122009202 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 94122009203 glycogen synthase; Provisional; Region: glgA; PRK00654 94122009204 ADP-binding pocket [chemical binding]; other site 94122009205 homodimer interface [polypeptide binding]; other site 94122009206 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 94122009207 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 94122009208 ligand binding site; other site 94122009209 oligomer interface; other site 94122009210 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 94122009211 dimer interface [polypeptide binding]; other site 94122009212 N-terminal domain interface [polypeptide binding]; other site 94122009213 sulfate 1 binding site; other site 94122009214 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 94122009215 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 94122009216 homodimer interface [polypeptide binding]; other site 94122009217 active site pocket [active] 94122009218 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 94122009219 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 94122009220 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 94122009221 active site 94122009222 catalytic site [active] 94122009223 glycogen branching enzyme; Provisional; Region: PRK05402 94122009224 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 94122009225 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 94122009226 active site 94122009227 catalytic site [active] 94122009228 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 94122009229 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 94122009230 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 94122009231 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 94122009232 active site 94122009233 Transcriptional regulators [Transcription]; Region: MarR; COG1846 94122009234 Helix-turn-helix domains; Region: HTH; cl00088 94122009235 Helix-turn-helix domains; Region: HTH; cl00088 94122009236 putative alcohol dehydrogenase; Provisional; Region: PRK09860 94122009237 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 94122009238 dimer interface [polypeptide binding]; other site 94122009239 active site 94122009240 metal binding site [ion binding]; metal-binding site 94122009241 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 94122009242 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 94122009243 tetramer interface [polypeptide binding]; other site 94122009244 active site 94122009245 Mg2+/Mn2+ binding site [ion binding]; other site 94122009246 malate synthase A; Region: malate_syn_A; TIGR01344 94122009247 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 94122009248 active site 94122009249 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122009250 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 94122009251 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 94122009252 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 94122009253 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 94122009254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122009256 metal binding site [ion binding]; metal-binding site 94122009257 active site 94122009258 I-site; other site 94122009259 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 94122009260 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 94122009261 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 94122009262 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 94122009263 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 94122009264 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 94122009265 putative coenzyme Q binding site [chemical binding]; other site 94122009266 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 94122009267 SmpB-tmRNA interface; other site 94122009268 integrase; Provisional; Region: PRK09692 94122009269 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 94122009270 active site 94122009271 Int/Topo IB signature motif; other site 94122009272 Helix-turn-helix domains; Region: HTH; cl00088 94122009273 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 94122009274 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 94122009275 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 94122009276 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 94122009277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122009278 AAA domain; Region: AAA_21; pfam13304 94122009279 Walker A/P-loop; other site 94122009280 ATP binding site [chemical binding]; other site 94122009281 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 94122009282 ATP binding site [chemical binding]; other site 94122009283 ABC transporter signature motif; other site 94122009284 Walker B; other site 94122009285 D-loop; other site 94122009286 H-loop/switch region; other site 94122009287 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 94122009288 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122009289 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122009290 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122009291 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 94122009292 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 94122009293 Fic family protein [Function unknown]; Region: COG3177 94122009294 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 94122009295 Fic/DOC family; Region: Fic; cl00960 94122009296 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 94122009297 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122009298 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 94122009299 ATP binding site [chemical binding]; other site 94122009300 putative Mg++ binding site [ion binding]; other site 94122009301 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 94122009302 nucleotide binding region [chemical binding]; other site 94122009303 ATP-binding site [chemical binding]; other site 94122009304 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 94122009305 PLD-like domain; Region: PLDc_2; pfam13091 94122009306 homodimer interface [polypeptide binding]; other site 94122009307 putative active site [active] 94122009308 catalytic site [active] 94122009309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122009310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122009311 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 94122009312 metal-binding site [ion binding] 94122009313 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 94122009314 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 94122009315 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 94122009316 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 94122009317 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 94122009318 homotrimer interaction site [polypeptide binding]; other site 94122009319 putative active site [active] 94122009320 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 94122009321 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 94122009322 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 94122009323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 94122009324 YheO-like PAS domain; Region: PAS_6; pfam08348 94122009325 Helix-turn-helix domains; Region: HTH; cl00088 94122009326 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 94122009327 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 94122009328 Domain of unknown function (DUF368); Region: DUF368; cl00893 94122009329 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 94122009330 CoenzymeA binding site [chemical binding]; other site 94122009331 subunit interaction site [polypeptide binding]; other site 94122009332 PHB binding site; other site 94122009333 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 94122009334 nucleoside/Zn binding site; other site 94122009335 dimer interface [polypeptide binding]; other site 94122009336 catalytic motif [active] 94122009337 Predicted membrane protein [Function unknown]; Region: COG2311 94122009338 Protein of unknown function (DUF418); Region: DUF418; cl12135 94122009339 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 94122009340 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 94122009341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122009342 Helix-turn-helix domains; Region: HTH; cl00088 94122009343 HPP family; Region: HPP; pfam04982 94122009344 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122009345 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 94122009346 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122009347 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 94122009348 Glyco_18 domain; Region: Glyco_18; smart00636 94122009349 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 94122009350 active site 94122009351 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 94122009352 chitin/cellulose binding site [chemical binding]; other site 94122009353 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 94122009354 chitin/cellulose binding site [chemical binding]; other site 94122009355 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 94122009356 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 94122009357 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 94122009358 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 94122009359 active site 94122009360 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 94122009361 PAS domain; Region: PAS_9; pfam13426 94122009362 putative active site [active] 94122009363 heme pocket [chemical binding]; other site 94122009364 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122009365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122009366 dimer interface [polypeptide binding]; other site 94122009367 putative CheW interface [polypeptide binding]; other site 94122009368 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 94122009369 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122009370 ATP binding site [chemical binding]; other site 94122009371 Mg++ binding site [ion binding]; other site 94122009372 motif III; other site 94122009373 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 94122009374 nucleotide binding region [chemical binding]; other site 94122009375 ATP-binding site [chemical binding]; other site 94122009376 Uncharacterized conserved protein [Function unknown]; Region: COG5361 94122009377 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 94122009378 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 94122009379 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 94122009380 putative catalytic residues [active] 94122009381 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 94122009382 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 94122009383 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 94122009384 substrate binding pocket [chemical binding]; other site 94122009385 membrane-bound complex binding site; other site 94122009386 hinge residues; other site 94122009387 Ribbon-helix-helix domain; Region: RHH_4; cl01775 94122009388 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 94122009389 intracellular protease, PfpI family; Region: PfpI; TIGR01382 94122009390 conserved cys residue [active] 94122009391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 94122009392 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 94122009393 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 94122009394 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 94122009395 DsrE/DsrF-like family; Region: DrsE; cl00672 94122009396 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 94122009397 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 94122009398 active site 94122009399 Zn binding site [ion binding]; other site 94122009400 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 94122009401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122009402 Coenzyme A binding pocket [chemical binding]; other site 94122009403 Protein of unknown function, DUF486; Region: DUF486; cl01236 94122009404 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 94122009405 RDD family; Region: RDD; cl00746 94122009406 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 94122009407 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 94122009408 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 94122009409 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 94122009410 multifunctional aminopeptidase A; Provisional; Region: PRK00913 94122009411 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 94122009412 interface (dimer of trimers) [polypeptide binding]; other site 94122009413 Substrate-binding/catalytic site; other site 94122009414 Zn-binding sites [ion binding]; other site 94122009415 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 94122009416 Chorismate mutase type II; Region: CM_2; cl00693 94122009417 Prephenate dehydratase; Region: PDT; pfam00800 94122009418 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 94122009419 putative L-Phe binding site [chemical binding]; other site 94122009420 NeuB family; Region: NeuB; cl00496 94122009421 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 94122009422 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 94122009423 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 94122009424 FAD binding pocket [chemical binding]; other site 94122009425 FAD binding motif [chemical binding]; other site 94122009426 phosphate binding motif [ion binding]; other site 94122009427 beta-alpha-beta structure motif; other site 94122009428 NAD binding pocket [chemical binding]; other site 94122009429 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 94122009430 catalytic loop [active] 94122009431 iron binding site [ion binding]; other site 94122009432 hybrid cluster protein; Provisional; Region: PRK05290 94122009433 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 94122009434 ACS interaction site; other site 94122009435 CODH interaction site; other site 94122009436 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 94122009437 hybrid metal cluster; other site 94122009438 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 94122009439 Chorismate mutase type II; Region: CM_2; cl00693 94122009440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009441 NeuB family; Region: NeuB; cl00496 94122009442 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 94122009443 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 94122009444 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 94122009445 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 94122009446 RimM N-terminal domain; Region: RimM; pfam01782 94122009447 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 94122009448 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 94122009449 signal recognition particle protein; Provisional; Region: PRK10867 94122009450 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 94122009451 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 94122009452 P loop; other site 94122009453 GTP binding site [chemical binding]; other site 94122009454 Signal peptide binding domain; Region: SRP_SPB; pfam02978 94122009455 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 94122009456 Domain of unknown function DUF21; Region: DUF21; pfam01595 94122009457 hypothetical protein; Provisional; Region: PRK11573 94122009458 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 94122009459 Transporter associated domain; Region: CorC_HlyC; cl08393 94122009460 Protein of unknown function (DUF962); Region: DUF962; cl01879 94122009461 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 94122009462 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 94122009463 active site 94122009464 hydrophilic channel; other site 94122009465 dimerization interface [polypeptide binding]; other site 94122009466 catalytic residues [active] 94122009467 active site lid [active] 94122009468 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 94122009469 Recombination protein O N terminal; Region: RecO_N; cl15812 94122009470 Recombination protein O C terminal; Region: RecO_C; pfam02565 94122009471 GTPase Era; Reviewed; Region: era; PRK00089 94122009472 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 94122009473 G1 box; other site 94122009474 GTP/Mg2+ binding site [chemical binding]; other site 94122009475 Switch I region; other site 94122009476 G2 box; other site 94122009477 Switch II region; other site 94122009478 G3 box; other site 94122009479 G4 box; other site 94122009480 G5 box; other site 94122009481 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 94122009482 ribonuclease III; Reviewed; Region: rnc; PRK00102 94122009483 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 94122009484 dimerization interface [polypeptide binding]; other site 94122009485 active site 94122009486 metal binding site [ion binding]; metal-binding site 94122009487 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 94122009488 dsRNA binding site [nucleotide binding]; other site 94122009489 signal peptidase I; Provisional; Region: PRK10861 94122009490 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 94122009491 Catalytic site [active] 94122009492 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 94122009493 GTP-binding protein LepA; Provisional; Region: PRK05433 94122009494 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 94122009495 G1 box; other site 94122009496 putative GEF interaction site [polypeptide binding]; other site 94122009497 GTP/Mg2+ binding site [chemical binding]; other site 94122009498 Switch I region; other site 94122009499 G2 box; other site 94122009500 G3 box; other site 94122009501 Switch II region; other site 94122009502 G4 box; other site 94122009503 G5 box; other site 94122009504 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 94122009505 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 94122009506 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 94122009507 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 94122009508 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 94122009509 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 94122009510 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 94122009511 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 94122009512 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 94122009513 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 94122009514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122009515 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 94122009516 DNA binding residues [nucleotide binding] 94122009517 L-aspartate oxidase; Provisional; Region: PRK09077 94122009518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009519 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 94122009520 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 94122009521 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 94122009522 Helix-turn-helix domains; Region: HTH; cl00088 94122009523 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 94122009524 dimerization interface [polypeptide binding]; other site 94122009525 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 94122009526 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 94122009527 dimerization interface [polypeptide binding]; other site 94122009528 active site 94122009529 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 94122009530 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122009531 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 94122009532 GAF domain; Region: GAF; cl15785 94122009533 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 94122009534 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 94122009535 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 94122009536 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 94122009537 putative active site [active] 94122009538 Ap4A binding site [chemical binding]; other site 94122009539 nudix motif; other site 94122009540 putative metal binding site [ion binding]; other site 94122009541 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 94122009542 putative DNA-binding cleft [nucleotide binding]; other site 94122009543 putative DNA clevage site; other site 94122009544 molecular lever; other site 94122009545 cyclase homology domain; Region: CHD; cd07302 94122009546 nucleotidyl binding site; other site 94122009547 metal binding site [ion binding]; metal-binding site 94122009548 dimer interface [polypeptide binding]; other site 94122009549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122009550 Helix-turn-helix domains; Region: HTH; cl00088 94122009551 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 94122009552 dimerization interface [polypeptide binding]; other site 94122009553 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 94122009554 radical SAM protein, TIGR01212 family; Region: TIGR01212 94122009555 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 94122009556 FeS/SAM binding site; other site 94122009557 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 94122009558 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 94122009559 active site 94122009560 dimer interface [polypeptide binding]; other site 94122009561 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 94122009562 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 94122009563 active site 94122009564 FMN binding site [chemical binding]; other site 94122009565 substrate binding site [chemical binding]; other site 94122009566 3Fe-4S cluster binding site [ion binding]; other site 94122009567 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 94122009568 domain interface; other site 94122009569 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 94122009570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009571 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122009572 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 94122009573 CobD/Cbib protein; Region: CobD_Cbib; cl00561 94122009574 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 94122009575 hypothetical protein; Provisional; Region: PRK10578 94122009576 UPF0126 domain; Region: UPF0126; pfam03458 94122009577 UPF0126 domain; Region: UPF0126; pfam03458 94122009578 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 94122009579 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 94122009580 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 94122009581 active site 94122009582 HIGH motif; other site 94122009583 dimer interface [polypeptide binding]; other site 94122009584 KMSKS motif; other site 94122009585 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 94122009586 putative peptidase; Provisional; Region: PRK11649 94122009587 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 94122009588 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 94122009589 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 94122009590 DNA binding site [nucleotide binding] 94122009591 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 94122009592 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 94122009593 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122009594 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122009595 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 94122009596 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 94122009597 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 94122009598 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 94122009599 amphipathic channel; other site 94122009600 Asn-Pro-Ala signature motifs; other site 94122009601 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 94122009602 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 94122009603 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 94122009604 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 94122009605 Cl- selectivity filter; other site 94122009606 Cl- binding residues [ion binding]; other site 94122009607 pore gating glutamate residue; other site 94122009608 dimer interface [polypeptide binding]; other site 94122009609 aspartate carbamoyltransferase; Provisional; Region: PRK08192 94122009610 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 94122009611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009612 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 94122009613 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 94122009614 inhibitor-cofactor binding pocket; inhibition site 94122009615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122009616 catalytic residue [active] 94122009617 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 94122009618 transmembrane helices; other site 94122009619 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 94122009620 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 94122009621 Walker A motif; other site 94122009622 ATP binding site [chemical binding]; other site 94122009623 Walker B motif; other site 94122009624 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 94122009625 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 94122009626 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 94122009627 active site 94122009628 NTP binding site [chemical binding]; other site 94122009629 metal binding triad [ion binding]; metal-binding site 94122009630 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 94122009631 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122009632 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 94122009633 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 94122009634 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 94122009635 Bacitracin resistance protein BacA; Region: BacA; cl00858 94122009636 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 94122009637 catalytic center binding site [active] 94122009638 ATP binding site [chemical binding]; other site 94122009639 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 94122009640 homooctamer interface [polypeptide binding]; other site 94122009641 active site 94122009642 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 94122009643 UGMP family protein; Validated; Region: PRK09604 94122009644 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 94122009645 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 94122009646 GatB domain; Region: GatB_Yqey; cl11497 94122009647 DNA primase; Validated; Region: dnaG; PRK05667 94122009648 CHC2 zinc finger; Region: zf-CHC2; cl15369 94122009649 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 94122009650 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 94122009651 active site 94122009652 metal binding site [ion binding]; metal-binding site 94122009653 interdomain interaction site; other site 94122009654 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 94122009655 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 94122009656 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 94122009657 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 94122009658 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 94122009659 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 94122009660 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122009661 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 94122009662 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 94122009663 DNA binding residues [nucleotide binding] 94122009664 Cache domain; Region: Cache_1; pfam02743 94122009665 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 94122009666 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122009667 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122009668 dimer interface [polypeptide binding]; other site 94122009669 putative CheW interface [polypeptide binding]; other site 94122009670 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 94122009671 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 94122009672 putative substrate translocation pore; other site 94122009673 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 94122009674 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 94122009675 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 94122009676 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 94122009677 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 94122009678 inhibitor-cofactor binding pocket; inhibition site 94122009679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122009680 catalytic residue [active] 94122009681 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 94122009682 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 94122009683 tetramerization interface [polypeptide binding]; other site 94122009684 NAD(P) binding site [chemical binding]; other site 94122009685 catalytic residues [active] 94122009686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009687 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 94122009688 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 94122009689 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 94122009690 dimer interface [polypeptide binding]; other site 94122009691 conserved gate region; other site 94122009692 putative PBP binding loops; other site 94122009693 ABC-ATPase subunit interface; other site 94122009694 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 94122009695 dimer interface [polypeptide binding]; other site 94122009696 conserved gate region; other site 94122009697 putative PBP binding loops; other site 94122009698 ABC-ATPase subunit interface; other site 94122009699 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 94122009700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122009701 Walker A/P-loop; other site 94122009702 ATP binding site [chemical binding]; other site 94122009703 Q-loop/lid; other site 94122009704 ABC transporter signature motif; other site 94122009705 Walker B; other site 94122009706 D-loop; other site 94122009707 H-loop/switch region; other site 94122009708 TOBE domain; Region: TOBE_2; cl01440 94122009709 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 94122009710 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 94122009711 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 94122009712 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 94122009713 Peptidase C26; Region: Peptidase_C26; pfam07722 94122009714 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 94122009715 catalytic triad [active] 94122009716 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 94122009717 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 94122009718 non-specific DNA binding site [nucleotide binding]; other site 94122009719 salt bridge; other site 94122009720 sequence-specific DNA binding site [nucleotide binding]; other site 94122009721 Cupin domain; Region: Cupin_2; cl09118 94122009722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009723 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 94122009724 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 94122009725 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 94122009726 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 94122009727 active site residue [active] 94122009728 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 94122009729 active site residue [active] 94122009730 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 94122009731 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 94122009732 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 94122009733 NAD(P) binding site [chemical binding]; other site 94122009734 catalytic residues [active] 94122009735 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 94122009736 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 94122009737 inhibitor-cofactor binding pocket; inhibition site 94122009738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122009739 catalytic residue [active] 94122009740 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 94122009741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 94122009742 tetrameric interface [polypeptide binding]; other site 94122009743 NAD binding site [chemical binding]; other site 94122009744 catalytic residues [active] 94122009745 Cupin domain; Region: Cupin_2; cl09118 94122009746 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 94122009747 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 94122009748 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 94122009749 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 94122009750 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 94122009751 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 94122009752 active site 94122009753 dimer interface [polypeptide binding]; other site 94122009754 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 94122009755 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 94122009756 dimer interface [polypeptide binding]; other site 94122009757 active site 94122009758 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 94122009759 dimer interface [polypeptide binding]; other site 94122009760 active site 94122009761 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 94122009762 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 94122009763 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 94122009764 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 94122009765 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 94122009766 active site 94122009767 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 94122009768 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 94122009769 dimerization interface [polypeptide binding]; other site 94122009770 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122009771 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122009772 dimer interface [polypeptide binding]; other site 94122009773 putative CheW interface [polypeptide binding]; other site 94122009774 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122009775 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 94122009776 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122009777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122009778 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 94122009779 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 94122009780 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 94122009781 ligand-binding site [chemical binding]; other site 94122009782 Transcriptional regulators [Transcription]; Region: PurR; COG1609 94122009783 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 94122009784 DNA binding site [nucleotide binding] 94122009785 domain linker motif; other site 94122009786 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 94122009787 putative ligand binding site [chemical binding]; other site 94122009788 putative dimerization interface [polypeptide binding]; other site 94122009789 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 94122009790 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122009791 Nitrogen regulatory protein P-II; Region: P-II; cl00412 94122009792 Nitrogen regulatory protein P-II; Region: P-II; smart00938 94122009793 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 94122009794 Type II transport protein GspH; Region: GspH; pfam12019 94122009795 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122009796 Type II transport protein GspH; Region: GspH; pfam12019 94122009797 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 94122009798 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122009799 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 94122009800 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 94122009801 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 94122009802 PilX N-terminal; Region: PilX_N; pfam14341 94122009803 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122009804 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 94122009805 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 94122009806 LytB protein; Region: LYTB; cl00507 94122009807 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 94122009808 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 94122009809 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 94122009810 lipoprotein signal peptidase; Provisional; Region: PRK14787 94122009811 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 94122009812 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122009813 active site 94122009814 HIGH motif; other site 94122009815 nucleotide binding site [chemical binding]; other site 94122009816 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 94122009817 active site 94122009818 KMSKS motif; other site 94122009819 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 94122009820 tRNA binding surface [nucleotide binding]; other site 94122009821 anticodon binding site; other site 94122009822 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 94122009823 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 94122009824 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 94122009825 active site 94122009826 Riboflavin kinase; Region: Flavokinase; cl03312 94122009827 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 94122009828 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 94122009829 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 94122009830 dimerization interface [polypeptide binding]; other site 94122009831 putative DNA binding site [nucleotide binding]; other site 94122009832 putative Zn2+ binding site [ion binding]; other site 94122009833 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 94122009834 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 94122009835 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122009836 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 94122009837 metal binding site [ion binding]; metal-binding site 94122009838 Protein of unknown function (DUF328); Region: DUF328; cl01143 94122009839 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 94122009840 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 94122009841 putative phosphoketolase; Provisional; Region: PRK05261 94122009842 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 94122009843 TPP-binding site; other site 94122009844 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 94122009845 XFP C-terminal domain; Region: XFP_C; pfam09363 94122009846 outer membrane protein A; Reviewed; Region: PRK10808 94122009847 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 94122009848 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122009849 ligand binding site [chemical binding]; other site 94122009850 transaldolase-like protein; Provisional; Region: PTZ00411 94122009851 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 94122009852 active site 94122009853 dimer interface [polypeptide binding]; other site 94122009854 catalytic residue [active] 94122009855 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 94122009856 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 94122009857 active site 94122009858 dimer interface [polypeptide binding]; other site 94122009859 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 94122009860 dimer interface [polypeptide binding]; other site 94122009861 active site 94122009862 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 94122009863 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 94122009864 NMT1-like family; Region: NMT1_2; cl15260 94122009865 RNA polymerase sigma factor; Provisional; Region: PRK12513 94122009866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122009867 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 94122009868 DNA binding residues [nucleotide binding] 94122009869 von Willebrand factor; Region: vWF_A; pfam12450 94122009870 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 94122009871 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 94122009872 metal ion-dependent adhesion site (MIDAS); other site 94122009873 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 94122009874 putative transporter; Provisional; Region: PRK11660 94122009875 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122009876 Sulfate transporter family; Region: Sulfate_transp; cl15842 94122009877 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 94122009878 AIR carboxylase; Region: AIRC; cl00310 94122009879 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 94122009880 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122009881 GAF domain; Region: GAF_2; pfam13185 94122009882 GAF domain; Region: GAF; cl15785 94122009883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122009884 metal binding site [ion binding]; metal-binding site 94122009885 active site 94122009886 I-site; other site 94122009887 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 94122009888 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122009889 catalytic residue [active] 94122009890 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 94122009891 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122009892 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122009893 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122009894 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122009895 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122009896 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122009897 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 94122009898 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 94122009899 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122009900 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 94122009901 oxaloacetate decarboxylase; Provisional; Region: PRK14040 94122009902 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 94122009903 active site 94122009904 catalytic residues [active] 94122009905 metal binding site [ion binding]; metal-binding site 94122009906 homodimer binding site [polypeptide binding]; other site 94122009907 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 94122009908 carboxyltransferase (CT) interaction site; other site 94122009909 biotinylation site [posttranslational modification]; other site 94122009910 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 94122009911 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 94122009912 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 94122009913 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 94122009914 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 94122009915 Clp amino terminal domain; Region: Clp_N; pfam02861 94122009916 Clp amino terminal domain; Region: Clp_N; pfam02861 94122009917 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 94122009918 Walker A motif; other site 94122009919 ATP binding site [chemical binding]; other site 94122009920 Walker B motif; other site 94122009921 arginine finger; other site 94122009922 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 94122009923 Walker A motif; other site 94122009924 ATP binding site [chemical binding]; other site 94122009925 Walker B motif; other site 94122009926 arginine finger; other site 94122009927 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 94122009928 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 94122009929 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 94122009930 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 94122009931 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 94122009932 RNA binding surface [nucleotide binding]; other site 94122009933 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 94122009934 active site 94122009935 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 94122009936 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 94122009937 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 94122009938 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122009939 dimer interface [polypeptide binding]; other site 94122009940 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 94122009941 putative CheW interface [polypeptide binding]; other site 94122009942 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 94122009943 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 94122009944 heme-binding site [chemical binding]; other site 94122009945 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 94122009946 FAD binding pocket [chemical binding]; other site 94122009947 FAD binding motif [chemical binding]; other site 94122009948 phosphate binding motif [ion binding]; other site 94122009949 beta-alpha-beta structure motif; other site 94122009950 NAD binding pocket [chemical binding]; other site 94122009951 Heme binding pocket [chemical binding]; other site 94122009952 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 94122009953 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 94122009954 active site 94122009955 uracil binding [chemical binding]; other site 94122009956 Predicted transcriptional regulator [Transcription]; Region: COG2345 94122009957 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 94122009958 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122009959 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 94122009960 active site 94122009961 metal binding site [ion binding]; metal-binding site 94122009962 YcxB-like protein; Region: YcxB; pfam14317 94122009963 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 94122009964 MltA-interacting protein MipA; Region: MipA; cl01504 94122009965 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 94122009966 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 94122009967 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 94122009968 active site 94122009969 phosphorylation site [posttranslational modification] 94122009970 intermolecular recognition site; other site 94122009971 dimerization interface [polypeptide binding]; other site 94122009972 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 94122009973 DNA binding site [nucleotide binding] 94122009974 sensor protein RstB; Provisional; Region: PRK10604 94122009975 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 94122009976 dimer interface [polypeptide binding]; other site 94122009977 phosphorylation site [posttranslational modification] 94122009978 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 94122009979 ATP binding site [chemical binding]; other site 94122009980 Mg2+ binding site [ion binding]; other site 94122009981 G-X-G motif; other site 94122009982 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 94122009983 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 94122009984 cysteine synthase B; Region: cysM; TIGR01138 94122009985 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 94122009986 dimer interface [polypeptide binding]; other site 94122009987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122009988 catalytic residue [active] 94122009989 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 94122009990 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 94122009991 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 94122009992 dimer interface [polypeptide binding]; other site 94122009993 conserved gate region; other site 94122009994 putative PBP binding loops; other site 94122009995 ABC-ATPase subunit interface; other site 94122009996 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 94122009997 dimer interface [polypeptide binding]; other site 94122009998 conserved gate region; other site 94122009999 putative PBP binding loops; other site 94122010000 ABC-ATPase subunit interface; other site 94122010001 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 94122010002 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 94122010003 Walker A/P-loop; other site 94122010004 ATP binding site [chemical binding]; other site 94122010005 Q-loop/lid; other site 94122010006 ABC transporter signature motif; other site 94122010007 Walker B; other site 94122010008 D-loop; other site 94122010009 H-loop/switch region; other site 94122010010 TOBE-like domain; Region: TOBE_3; pfam12857 94122010011 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122010012 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 94122010013 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 94122010014 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 94122010015 Ycf46; Provisional; Region: ycf46; CHL00195 94122010016 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 94122010017 Walker A motif; other site 94122010018 ATP binding site [chemical binding]; other site 94122010019 Walker B motif; other site 94122010020 arginine finger; other site 94122010021 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 94122010022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010023 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122010024 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 94122010025 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 94122010026 glycerate dehydrogenase; Provisional; Region: PRK06487 94122010027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010028 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 94122010029 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 94122010030 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 94122010031 putative metal binding site [ion binding]; other site 94122010032 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 94122010033 HSP70 interaction site [polypeptide binding]; other site 94122010034 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 94122010035 Substrate binding site; other site 94122010036 metal-binding site 94122010037 Phosphotransferase enzyme family; Region: APH; pfam01636 94122010038 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122010039 active site 94122010040 ATP binding site [chemical binding]; other site 94122010041 substrate binding site [chemical binding]; other site 94122010042 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 94122010043 OstA-like protein; Region: OstA; cl00844 94122010044 Organic solvent tolerance protein; Region: OstA_C; pfam04453 94122010045 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 94122010046 SurA N-terminal domain; Region: SurA_N_3; cl07813 94122010047 PPIC-type PPIASE domain; Region: Rotamase; cl08278 94122010048 PPIC-type PPIASE domain; Region: Rotamase; cl08278 94122010049 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 94122010050 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 94122010051 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 94122010052 Protein of unknown function (DUF525); Region: DUF525; cl01119 94122010053 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 94122010054 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 94122010055 active site 94122010056 metal binding site [ion binding]; metal-binding site 94122010057 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 94122010058 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122010059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122010060 dimer interface [polypeptide binding]; other site 94122010061 putative CheW interface [polypeptide binding]; other site 94122010062 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 94122010063 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 94122010064 NADP+ binding site [chemical binding]; other site 94122010065 folate binding site [chemical binding]; other site 94122010066 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 94122010067 Uncharacterized conserved protein [Function unknown]; Region: COG2966 94122010068 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 94122010069 GTPase CgtA; Reviewed; Region: obgE; PRK12298 94122010070 GTP1/OBG; Region: GTP1_OBG; pfam01018 94122010071 Obg GTPase; Region: Obg; cd01898 94122010072 G1 box; other site 94122010073 GTP/Mg2+ binding site [chemical binding]; other site 94122010074 Switch I region; other site 94122010075 G2 box; other site 94122010076 G3 box; other site 94122010077 Switch II region; other site 94122010078 G4 box; other site 94122010079 G5 box; other site 94122010080 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 94122010081 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 94122010082 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 94122010083 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 94122010084 substrate binding pocket [chemical binding]; other site 94122010085 chain length determination region; other site 94122010086 substrate-Mg2+ binding site; other site 94122010087 catalytic residues [active] 94122010088 aspartate-rich region 1; other site 94122010089 active site lid residues [active] 94122010090 aspartate-rich region 2; other site 94122010091 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 94122010092 ligand binding site [chemical binding]; other site 94122010093 active site 94122010094 UGI interface [polypeptide binding]; other site 94122010095 catalytic site [active] 94122010096 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 94122010097 LysE type translocator; Region: LysE; cl00565 94122010098 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 94122010099 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 94122010100 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 94122010101 DsbD alpha interface [polypeptide binding]; other site 94122010102 catalytic residues [active] 94122010103 PAS domain S-box; Region: sensory_box; TIGR00229 94122010104 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 94122010105 putative active site [active] 94122010106 heme pocket [chemical binding]; other site 94122010107 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 94122010108 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 94122010109 Walker A motif; other site 94122010110 ATP binding site [chemical binding]; other site 94122010111 Walker B motif; other site 94122010112 arginine finger; other site 94122010113 Helix-turn-helix domains; Region: HTH; cl00088 94122010114 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 94122010115 4Fe-4S binding domain; Region: Fer4_5; pfam12801 94122010116 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 94122010117 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 94122010118 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 94122010119 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 94122010120 active site 94122010121 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 94122010122 AMP-binding enzyme; Region: AMP-binding; cl15778 94122010123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122010124 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 94122010125 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122010126 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 94122010127 Walker A/P-loop; other site 94122010128 ATP binding site [chemical binding]; other site 94122010129 Q-loop/lid; other site 94122010130 ABC transporter signature motif; other site 94122010131 Walker B; other site 94122010132 D-loop; other site 94122010133 H-loop/switch region; other site 94122010134 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 94122010135 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 94122010136 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 94122010137 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 94122010138 N-terminal plug; other site 94122010139 ligand-binding site [chemical binding]; other site 94122010140 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 94122010141 Gram-negative bacterial tonB protein; Region: TonB; cl10048 94122010142 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 94122010143 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 94122010144 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 94122010145 intersubunit interface [polypeptide binding]; other site 94122010146 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 94122010147 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 94122010148 ABC-ATPase subunit interface; other site 94122010149 dimer interface [polypeptide binding]; other site 94122010150 putative PBP binding regions; other site 94122010151 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 94122010152 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 94122010153 Walker A/P-loop; other site 94122010154 ATP binding site [chemical binding]; other site 94122010155 Q-loop/lid; other site 94122010156 ABC transporter signature motif; other site 94122010157 Walker B; other site 94122010158 D-loop; other site 94122010159 H-loop/switch region; other site 94122010160 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 94122010161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010162 FAD dependent oxidoreductase; Region: DAO; pfam01266 94122010163 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 94122010164 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 94122010165 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 94122010166 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122010167 substrate binding pocket [chemical binding]; other site 94122010168 membrane-bound complex binding site; other site 94122010169 hinge residues; other site 94122010170 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 94122010171 Ligand Binding Site [chemical binding]; other site 94122010172 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 94122010173 Ligand Binding Site [chemical binding]; other site 94122010174 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 94122010175 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 94122010176 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 94122010177 NAD(P) binding site [chemical binding]; other site 94122010178 catalytic residues [active] 94122010179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 94122010180 Helix-turn-helix domains; Region: HTH; cl00088 94122010181 TolB amino-terminal domain; Region: TolB_N; cl00639 94122010182 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 94122010183 Curli assembly protein CsgE; Region: CsgE; cl08115 94122010184 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 94122010185 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 94122010186 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 94122010187 ATP binding site [chemical binding]; other site 94122010188 Mg2+ binding site [ion binding]; other site 94122010189 G-X-G motif; other site 94122010190 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122010191 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 94122010192 active site 94122010193 phosphorylation site [posttranslational modification] 94122010194 intermolecular recognition site; other site 94122010195 dimerization interface [polypeptide binding]; other site 94122010196 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 94122010197 Walker A motif; other site 94122010198 ATP binding site [chemical binding]; other site 94122010199 Walker B motif; other site 94122010200 arginine finger; other site 94122010201 Helix-turn-helix domains; Region: HTH; cl00088 94122010202 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 94122010203 FtsX-like permease family; Region: FtsX; cl15850 94122010204 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 94122010205 FtsX-like permease family; Region: FtsX; cl15850 94122010206 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 94122010207 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 94122010208 Walker A/P-loop; other site 94122010209 ATP binding site [chemical binding]; other site 94122010210 Q-loop/lid; other site 94122010211 ABC transporter signature motif; other site 94122010212 Walker B; other site 94122010213 D-loop; other site 94122010214 H-loop/switch region; other site 94122010215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122010216 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 94122010217 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 94122010218 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 94122010219 active site 94122010220 substrate binding pocket [chemical binding]; other site 94122010221 dimer interface [polypeptide binding]; other site 94122010222 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 94122010223 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 94122010224 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 94122010225 MAPEG family; Region: MAPEG; cl09190 94122010226 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122010227 Coenzyme A binding pocket [chemical binding]; other site 94122010228 AAA domain; Region: AAA_33; pfam13671 94122010229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010230 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 94122010231 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 94122010232 cobalamin binding residues [chemical binding]; other site 94122010233 putative BtuC binding residues; other site 94122010234 dimer interface [polypeptide binding]; other site 94122010235 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 94122010236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010237 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 94122010238 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 94122010239 homodimer interface [polypeptide binding]; other site 94122010240 Walker A motif; other site 94122010241 ATP binding site [chemical binding]; other site 94122010242 hydroxycobalamin binding site [chemical binding]; other site 94122010243 Walker B motif; other site 94122010244 cobyric acid synthase; Provisional; Region: PRK00784 94122010245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010247 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 94122010248 catalytic triad [active] 94122010249 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 94122010250 homotrimer interface [polypeptide binding]; other site 94122010251 Walker A motif; other site 94122010252 GTP binding site [chemical binding]; other site 94122010253 Walker B motif; other site 94122010254 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 94122010255 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 94122010256 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 94122010257 putative dimer interface [polypeptide binding]; other site 94122010258 active site pocket [active] 94122010259 putative cataytic base [active] 94122010260 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 94122010261 ABC-ATPase subunit interface; other site 94122010262 dimer interface [polypeptide binding]; other site 94122010263 putative PBP binding regions; other site 94122010264 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 94122010265 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 94122010266 Walker A/P-loop; other site 94122010267 ATP binding site [chemical binding]; other site 94122010268 Q-loop/lid; other site 94122010269 ABC transporter signature motif; other site 94122010270 Walker B; other site 94122010271 D-loop; other site 94122010272 H-loop/switch region; other site 94122010273 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 94122010274 catalytic core [active] 94122010275 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 94122010276 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 94122010277 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 94122010278 substrate binding pocket [chemical binding]; other site 94122010279 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 94122010280 B12 binding site [chemical binding]; other site 94122010281 cobalt ligand [ion binding]; other site 94122010282 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 94122010283 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 94122010284 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 94122010285 putative major pilin subunit; Provisional; Region: PRK10574 94122010286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 94122010292 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 94122010293 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 94122010294 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 94122010295 Rhomboid family; Region: Rhomboid; cl11446 94122010296 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 94122010297 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122010298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122010299 Helix-turn-helix domains; Region: HTH; cl00088 94122010300 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 94122010301 dimerization interface [polypeptide binding]; other site 94122010302 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122010303 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 94122010304 active site 94122010305 metal binding site [ion binding]; metal-binding site 94122010306 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 94122010307 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 94122010308 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 94122010309 dimer interface [polypeptide binding]; other site 94122010310 putative anticodon binding site; other site 94122010311 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 94122010312 motif 1; other site 94122010313 active site 94122010314 motif 2; other site 94122010315 motif 3; other site 94122010316 peptide chain release factor 2; Validated; Region: prfB; PRK00578 94122010317 RF-1 domain; Region: RF-1; cl02875 94122010318 RF-1 domain; Region: RF-1; cl02875 94122010319 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 94122010320 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 94122010321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122010323 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 94122010324 4Fe-4S binding domain; Region: Fer4; cl02805 94122010325 4Fe-4S binding domain; Region: Fer4; cl02805 94122010326 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 94122010327 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 94122010328 [4Fe-4S] binding site [ion binding]; other site 94122010329 molybdopterin cofactor binding site; other site 94122010330 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_CT_Formate-Dh_H; cd02790 94122010331 molybdopterin cofactor binding site; other site 94122010332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 94122010333 Cache domain; Region: Cache_2; cl07034 94122010334 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 94122010335 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 94122010336 dimerization interface [polypeptide binding]; other site 94122010337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122010338 dimer interface [polypeptide binding]; other site 94122010339 putative CheW interface [polypeptide binding]; other site 94122010340 Chromate transporter; Region: Chromate_transp; pfam02417 94122010341 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 94122010342 Chromate transporter; Region: Chromate_transp; pfam02417 94122010343 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122010344 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 94122010345 active site 94122010346 catalytic triad [active] 94122010347 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 94122010348 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122010349 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122010350 catalytic residues [active] 94122010351 HTH-like domain; Region: HTH_21; pfam13276 94122010352 Integrase core domain; Region: rve; cl01316 94122010353 Integrase core domain; Region: rve_3; cl15866 94122010354 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122010355 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 94122010356 active site 94122010357 catalytic triad [active] 94122010358 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 94122010359 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122010360 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122010361 catalytic residues [active] 94122010362 MltA-interacting protein MipA; Region: MipA; cl01504 94122010363 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 94122010364 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122010365 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 94122010366 active site 94122010367 phosphorylation site [posttranslational modification] 94122010368 intermolecular recognition site; other site 94122010369 dimerization interface [polypeptide binding]; other site 94122010370 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 94122010371 DNA binding site [nucleotide binding] 94122010372 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 94122010373 dimer interface [polypeptide binding]; other site 94122010374 phosphorylation site [posttranslational modification] 94122010375 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 94122010376 ATP binding site [chemical binding]; other site 94122010377 Mg2+ binding site [ion binding]; other site 94122010378 G-X-G motif; other site 94122010379 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 94122010380 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 94122010381 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 94122010382 Transcriptional regulators [Transcription]; Region: MarR; COG1846 94122010383 Helix-turn-helix domains; Region: HTH; cl00088 94122010384 OsmC-like protein; Region: OsmC; cl00767 94122010385 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 94122010386 Methyltransferase domain; Region: Methyltransf_31; pfam13847 94122010387 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 94122010388 S-adenosylmethionine binding site [chemical binding]; other site 94122010389 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 94122010390 heme-binding residues [chemical binding]; other site 94122010391 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 94122010392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010393 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 94122010394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010395 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 94122010396 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 94122010397 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122010398 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 94122010399 multifunctional aminopeptidase A; Provisional; Region: PRK00913 94122010400 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 94122010401 interface (dimer of trimers) [polypeptide binding]; other site 94122010402 Substrate-binding/catalytic site; other site 94122010403 Zn-binding sites [ion binding]; other site 94122010404 peroxiredoxin; Region: AhpC; TIGR03137 94122010405 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 94122010406 dimer interface [polypeptide binding]; other site 94122010407 decamer (pentamer of dimers) interface [polypeptide binding]; other site 94122010408 catalytic triad [active] 94122010409 peroxidatic and resolving cysteines [active] 94122010410 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 94122010411 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 94122010412 catalytic residue [active] 94122010413 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 94122010414 catalytic residues [active] 94122010415 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122010416 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 94122010417 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122010418 Coenzyme A binding pocket [chemical binding]; other site 94122010419 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 94122010420 DHH family; Region: DHH; pfam01368 94122010421 DHHA1 domain; Region: DHHA1; pfam02272 94122010422 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 94122010423 dimerization domain [polypeptide binding]; other site 94122010424 dimer interface [polypeptide binding]; other site 94122010425 catalytic residues [active] 94122010426 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 94122010427 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 94122010428 active site 94122010429 Int/Topo IB signature motif; other site 94122010430 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 94122010431 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 94122010432 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 94122010433 S-adenosylmethionine binding site [chemical binding]; other site 94122010434 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 94122010435 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 94122010436 active site 94122010437 phosphorylation site [posttranslational modification] 94122010438 intermolecular recognition site; other site 94122010439 dimerization interface [polypeptide binding]; other site 94122010440 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122010441 Zn2+ binding site [ion binding]; other site 94122010442 Mg2+ binding site [ion binding]; other site 94122010443 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 94122010444 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 94122010445 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 94122010446 PAS domain S-box; Region: sensory_box; TIGR00229 94122010447 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 94122010448 putative active site [active] 94122010449 heme pocket [chemical binding]; other site 94122010450 PAS fold; Region: PAS_3; pfam08447 94122010451 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 94122010452 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 94122010453 dimer interface [polypeptide binding]; other site 94122010454 phosphorylation site [posttranslational modification] 94122010455 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 94122010456 ATP binding site [chemical binding]; other site 94122010457 Mg2+ binding site [ion binding]; other site 94122010458 G-X-G motif; other site 94122010459 Response regulator receiver domain; Region: Response_reg; pfam00072 94122010460 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 94122010461 active site 94122010462 phosphorylation site [posttranslational modification] 94122010463 intermolecular recognition site; other site 94122010464 dimerization interface [polypeptide binding]; other site 94122010465 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 94122010466 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 94122010467 DEAD-like helicases superfamily; Region: DEXDc; smart00487 94122010468 ATP binding site [chemical binding]; other site 94122010469 Mg++ binding site [ion binding]; other site 94122010470 motif III; other site 94122010471 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 94122010472 nucleotide binding region [chemical binding]; other site 94122010473 ATP-binding site [chemical binding]; other site 94122010474 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122010475 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 94122010476 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122010477 Protein export membrane protein; Region: SecD_SecF; cl14618 94122010478 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 94122010479 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 94122010480 FeS/SAM binding site; other site 94122010481 PAS domain; Region: PAS_9; pfam13426 94122010482 PAS domain; Region: PAS_9; pfam13426 94122010483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122010484 Helix-turn-helix domains; Region: HTH; cl00088 94122010485 DNA binding site [nucleotide binding] 94122010486 Helix-turn-helix domains; Region: HTH; cl00088 94122010487 DNA binding site [nucleotide binding] 94122010488 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 94122010489 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 94122010490 transmembrane helices; other site 94122010491 Protein of unknown function, DUF481; Region: DUF481; cl01213 94122010492 hypothetical protein; Provisional; Region: PRK08185 94122010493 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 94122010494 intersubunit interface [polypeptide binding]; other site 94122010495 active site 94122010496 zinc binding site [ion binding]; other site 94122010497 Na+ binding site [ion binding]; other site 94122010498 Phosphoglycerate kinase; Region: PGK; pfam00162 94122010499 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 94122010500 substrate binding site [chemical binding]; other site 94122010501 hinge regions; other site 94122010502 ADP binding site [chemical binding]; other site 94122010503 catalytic site [active] 94122010504 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 94122010505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010506 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122010507 transketolase; Reviewed; Region: PRK12753 94122010508 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 94122010509 TPP-binding site [chemical binding]; other site 94122010510 dimer interface [polypeptide binding]; other site 94122010511 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 94122010512 PYR/PP interface [polypeptide binding]; other site 94122010513 dimer interface [polypeptide binding]; other site 94122010514 TPP binding site [chemical binding]; other site 94122010515 S-adenosylmethionine synthetase; Validated; Region: PRK05250 94122010516 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 94122010517 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 94122010518 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 94122010519 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 94122010520 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 94122010521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122010522 metal binding site [ion binding]; metal-binding site 94122010523 active site 94122010524 I-site; other site 94122010525 META domain; Region: META; cl01245 94122010526 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 94122010527 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 94122010528 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 94122010529 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 94122010530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122010531 Coenzyme A binding pocket [chemical binding]; other site 94122010532 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 94122010533 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 94122010534 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 94122010535 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 94122010536 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 94122010537 active site 94122010538 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 94122010539 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 94122010540 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 94122010541 Helix-turn-helix domains; Region: HTH; cl00088 94122010542 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122010543 Coenzyme A binding pocket [chemical binding]; other site 94122010544 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 94122010545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122010546 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 94122010547 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 94122010548 catalytic loop [active] 94122010549 iron binding site [ion binding]; other site 94122010550 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 94122010551 FAD binding pocket [chemical binding]; other site 94122010552 FAD binding motif [chemical binding]; other site 94122010553 phosphate binding motif [ion binding]; other site 94122010554 beta-alpha-beta structure motif; other site 94122010555 NAD binding pocket [chemical binding]; other site 94122010556 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122010557 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 94122010558 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 94122010559 FMN-binding domain; Region: FMN_bind; cl01081 94122010560 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 94122010561 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 94122010562 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 94122010563 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 94122010564 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 94122010565 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 94122010566 active site 94122010567 catalytic tetrad [active] 94122010568 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 94122010569 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_16; cd07263 94122010570 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 94122010571 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 94122010572 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 94122010573 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 94122010574 N-terminal plug; other site 94122010575 ligand-binding site [chemical binding]; other site 94122010576 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 94122010577 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 94122010578 ATP binding site [chemical binding]; other site 94122010579 Mg++ binding site [ion binding]; other site 94122010580 motif III; other site 94122010581 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 94122010582 nucleotide binding region [chemical binding]; other site 94122010583 ATP-binding site [chemical binding]; other site 94122010584 DbpA RNA binding domain; Region: DbpA; pfam03880 94122010585 Pirin-related protein [General function prediction only]; Region: COG1741 94122010586 Cupin domain; Region: Cupin_2; cl09118 94122010587 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 94122010588 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 94122010589 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 94122010590 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 94122010591 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 94122010592 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 94122010593 ABC transporter; Region: ABC_tran_2; pfam12848 94122010594 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 94122010595 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 94122010596 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 94122010597 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 94122010598 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 94122010599 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 94122010600 putative hydrolase; Provisional; Region: PRK10985 94122010601 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 94122010602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010603 active site 94122010604 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 94122010605 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122010606 Coenzyme A binding pocket [chemical binding]; other site 94122010607 aminopeptidase B; Provisional; Region: PRK05015 94122010608 Peptidase; Region: DUF3663; pfam12404 94122010609 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 94122010610 interface (dimer of trimers) [polypeptide binding]; other site 94122010611 Substrate-binding/catalytic site; other site 94122010612 Zn-binding sites [ion binding]; other site 94122010613 Sugar fermentation stimulation protein; Region: SfsA; cl00647 94122010614 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 94122010615 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122010616 active site 94122010617 HIGH motif; other site 94122010618 nucleotide binding site [chemical binding]; other site 94122010619 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 94122010620 active site 94122010621 KMSKS motif; other site 94122010622 poly(A) polymerase; Region: pcnB; TIGR01942 94122010623 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 94122010624 active site 94122010625 NTP binding site [chemical binding]; other site 94122010626 metal binding triad [ion binding]; metal-binding site 94122010627 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 94122010628 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 94122010629 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 94122010630 catalytic center binding site [active] 94122010631 ATP binding site [chemical binding]; other site 94122010632 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 94122010633 oligomerization interface [polypeptide binding]; other site 94122010634 active site 94122010635 metal binding site [ion binding]; metal-binding site 94122010636 Pantoate-beta-alanine ligase; Region: PanC; cd00560 94122010637 pantoate--beta-alanine ligase; Region: panC; TIGR00018 94122010638 active site 94122010639 ATP-binding site [chemical binding]; other site 94122010640 pantoate-binding site; other site 94122010641 HXXH motif; other site 94122010642 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 94122010643 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122010644 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 94122010645 catalytic triad [active] 94122010646 putative active site [active] 94122010647 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 94122010648 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 94122010649 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010650 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010651 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 94122010652 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010653 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010654 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010655 major curlin subunit; Provisional; Region: csgA; PRK10051 94122010656 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010657 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010658 Curlin associated repeat; Region: Curlin_rpt; pfam07012 94122010659 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 94122010660 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 94122010661 DNA binding residues [nucleotide binding] 94122010662 dimerization interface [polypeptide binding]; other site 94122010663 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 94122010664 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 94122010665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010666 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 94122010667 L-serine binding site [chemical binding]; other site 94122010668 ACT domain interface; other site 94122010669 putative global regulator; Reviewed; Region: PRK09559 94122010670 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 94122010671 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 94122010672 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 94122010673 active site 94122010674 phosphorylation site [posttranslational modification] 94122010675 intermolecular recognition site; other site 94122010676 dimerization interface [polypeptide binding]; other site 94122010677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122010678 Zn2+ binding site [ion binding]; other site 94122010679 Mg2+ binding site [ion binding]; other site 94122010680 Cache domain; Region: Cache_1; pfam02743 94122010681 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 94122010682 PAS domain; Region: PAS_9; pfam13426 94122010683 PAS domain S-box; Region: sensory_box; TIGR00229 94122010684 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 94122010685 putative active site [active] 94122010686 heme pocket [chemical binding]; other site 94122010687 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 94122010688 PAS fold; Region: PAS_3; pfam08447 94122010689 putative active site [active] 94122010690 heme pocket [chemical binding]; other site 94122010691 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 94122010692 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 94122010693 putative active site [active] 94122010694 heme pocket [chemical binding]; other site 94122010695 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 94122010696 putative active site [active] 94122010697 heme pocket [chemical binding]; other site 94122010698 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 94122010699 dimer interface [polypeptide binding]; other site 94122010700 phosphorylation site [posttranslational modification] 94122010701 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 94122010702 ATP binding site [chemical binding]; other site 94122010703 Mg2+ binding site [ion binding]; other site 94122010704 G-X-G motif; other site 94122010705 Response regulator receiver domain; Region: Response_reg; pfam00072 94122010706 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 94122010707 active site 94122010708 phosphorylation site [posttranslational modification] 94122010709 intermolecular recognition site; other site 94122010710 dimerization interface [polypeptide binding]; other site 94122010711 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 94122010712 Response regulator receiver domain; Region: Response_reg; pfam00072 94122010713 active site 94122010714 phosphorylation site [posttranslational modification] 94122010715 intermolecular recognition site; other site 94122010716 dimerization interface [polypeptide binding]; other site 94122010717 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 94122010718 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 94122010719 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 94122010720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 94122010721 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 94122010722 Walker A/P-loop; other site 94122010723 ATP binding site [chemical binding]; other site 94122010724 Q-loop/lid; other site 94122010725 ABC transporter signature motif; other site 94122010726 Walker B; other site 94122010727 D-loop; other site 94122010728 H-loop/switch region; other site 94122010729 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 94122010730 FtsX-like permease family; Region: FtsX; cl15850 94122010731 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 94122010732 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 94122010733 Type II transport protein GspH; Region: GspH; pfam12019 94122010734 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122010735 hypothetical protein; Provisional; Region: PRK10557 94122010736 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 94122010737 NapD protein; Region: NapD; cl01163 94122010738 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 94122010739 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 94122010740 [4Fe-4S] binding site [ion binding]; other site 94122010741 molybdopterin cofactor binding site; other site 94122010742 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 94122010743 molybdopterin cofactor binding site; other site 94122010744 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 94122010745 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 94122010746 4Fe-4S binding domain; Region: Fer4_5; pfam12801 94122010747 4Fe-4S binding domain; Region: Fer4_5; pfam12801 94122010748 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 94122010749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122010750 Helix-turn-helix domains; Region: HTH; cl00088 94122010751 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 94122010752 putative dimerization interface [polypeptide binding]; other site 94122010753 elongation factor G; Reviewed; Region: PRK00007 94122010754 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 94122010755 G1 box; other site 94122010756 putative GEF interaction site [polypeptide binding]; other site 94122010757 GTP/Mg2+ binding site [chemical binding]; other site 94122010758 Switch I region; other site 94122010759 G2 box; other site 94122010760 G3 box; other site 94122010761 Switch II region; other site 94122010762 G4 box; other site 94122010763 G5 box; other site 94122010764 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 94122010765 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 94122010766 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 94122010767 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 94122010768 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 94122010769 substrate binding pocket [chemical binding]; other site 94122010770 membrane-bound complex binding site; other site 94122010771 hinge residues; other site 94122010772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122010773 metal binding site [ion binding]; metal-binding site 94122010774 active site 94122010775 I-site; other site 94122010776 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 94122010777 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 94122010778 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 94122010779 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 94122010780 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122010781 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 94122010782 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 94122010783 carboxyltransferase (CT) interaction site; other site 94122010784 biotinylation site [posttranslational modification]; other site 94122010785 LysR family transcriptional regulator; Provisional; Region: PRK14997 94122010786 Helix-turn-helix domains; Region: HTH; cl00088 94122010787 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 94122010788 putative effector binding pocket; other site 94122010789 dimerization interface [polypeptide binding]; other site 94122010790 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122010791 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 94122010792 putative substrate binding pocket [chemical binding]; other site 94122010793 AC domain interface; other site 94122010794 catalytic triad [active] 94122010795 AB domain interface; other site 94122010796 interchain disulfide; other site 94122010797 hypothetical protein; Provisional; Region: PRK04860 94122010798 SprT homologues; Region: SprT; cl01182 94122010799 Endonuclease I; Region: Endonuclease_1; cl01003 94122010800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 94122010801 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 94122010802 glutathione synthetase; Provisional; Region: PRK05246 94122010803 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 94122010804 ATP-grasp domain; Region: ATP-grasp_4; cl03087 94122010805 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 94122010806 dimer interface [polypeptide binding]; other site 94122010807 Alkaline phosphatase homologues; Region: alkPPc; smart00098 94122010808 active site 94122010809 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 94122010810 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 94122010811 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 94122010812 S-adenosylmethionine binding site [chemical binding]; other site 94122010813 Protein of unknown function (DUF342); Region: DUF342; pfam03961 94122010814 protein structure with unknown function; Region: DUF4144; pfam13642 94122010815 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_2; cd06160 94122010816 active site 94122010817 putative substrate binding region [chemical binding]; other site 94122010818 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 94122010819 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 94122010820 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 94122010821 Walker A/P-loop; other site 94122010822 ATP binding site [chemical binding]; other site 94122010823 Q-loop/lid; other site 94122010824 ABC transporter signature motif; other site 94122010825 Walker B; other site 94122010826 D-loop; other site 94122010827 H-loop/switch region; other site 94122010828 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 94122010829 FtsX-like permease family; Region: FtsX; cl15850 94122010830 macrolide transporter subunit MacA; Provisional; Region: PRK11578 94122010831 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 94122010832 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 94122010833 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 94122010834 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 94122010835 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122010836 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 94122010837 N-terminal plug; other site 94122010838 ligand-binding site [chemical binding]; other site 94122010839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 94122010840 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 94122010841 active site 94122010842 phosphorylation site [posttranslational modification] 94122010843 intermolecular recognition site; other site 94122010844 dimerization interface [polypeptide binding]; other site 94122010845 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 94122010846 DNA binding residues [nucleotide binding] 94122010847 dimerization interface [polypeptide binding]; other site 94122010848 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 94122010849 Na binding site [ion binding]; other site 94122010850 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 94122010851 PAS fold; Region: PAS_7; pfam12860 94122010852 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 94122010853 dimer interface [polypeptide binding]; other site 94122010854 phosphorylation site [posttranslational modification] 94122010855 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 94122010856 ATP binding site [chemical binding]; other site 94122010857 Mg2+ binding site [ion binding]; other site 94122010858 G-X-G motif; other site 94122010859 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 94122010860 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 94122010861 active site 94122010862 phosphorylation site [posttranslational modification] 94122010863 intermolecular recognition site; other site 94122010864 dimerization interface [polypeptide binding]; other site 94122010865 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 94122010866 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122010867 putative substrate translocation pore; other site 94122010868 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 94122010869 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 94122010870 substrate binding pocket [chemical binding]; other site 94122010871 amidase; Validated; Region: PRK06565 94122010872 Amidase; Region: Amidase; cl11426 94122010873 Amidase; Region: Amidase; cl11426 94122010874 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 94122010875 agmatine deiminase; Region: agmatine_aguA; TIGR03380 94122010876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010877 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 94122010878 NAD(P) binding site [chemical binding]; other site 94122010879 active site 94122010880 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 94122010881 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 94122010882 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 94122010883 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 94122010884 THF binding site; other site 94122010885 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 94122010886 substrate binding site [chemical binding]; other site 94122010887 THF binding site; other site 94122010888 zinc-binding site [ion binding]; other site 94122010889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122010890 Helix-turn-helix domains; Region: HTH; cl00088 94122010891 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 94122010892 putative dimerization interface [polypeptide binding]; other site 94122010893 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 94122010894 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122010895 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 94122010896 N-terminal plug; other site 94122010897 ligand-binding site [chemical binding]; other site 94122010898 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 94122010899 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 94122010900 active site 94122010901 tetramer interface [polypeptide binding]; other site 94122010902 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 94122010903 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 94122010904 substrate binding site [chemical binding]; other site 94122010905 dimer interface [polypeptide binding]; other site 94122010906 ATP binding site [chemical binding]; other site 94122010907 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122010908 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 94122010909 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 94122010910 putative active site [active] 94122010911 catalytic site [active] 94122010912 putative metal binding site [ion binding]; other site 94122010913 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122010914 active site 94122010915 PhoD-like phosphatase; Region: PhoD; pfam09423 94122010916 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 94122010917 putative active site [active] 94122010918 putative metal binding site [ion binding]; other site 94122010919 PhoD-like phosphatase; Region: PhoD; pfam09423 94122010920 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 94122010921 FOG: CBS domain [General function prediction only]; Region: COG0517 94122010922 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_15; cd04803 94122010923 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 94122010924 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 94122010925 MatE; Region: MatE; cl10513 94122010926 MatE; Region: MatE; cl10513 94122010927 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 94122010928 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 94122010929 substrate binding pocket [chemical binding]; other site 94122010930 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 94122010931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122010932 metal binding site [ion binding]; metal-binding site 94122010933 active site 94122010934 I-site; other site 94122010935 TIGR03549 family protein; Region: TIGR03549 94122010936 OsmC-like protein; Region: OsmC; cl00767 94122010937 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 94122010938 Cache domain; Region: Cache_2; cl07034 94122010939 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 94122010940 dimerization interface [polypeptide binding]; other site 94122010941 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122010942 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122010943 dimer interface [polypeptide binding]; other site 94122010944 putative CheW interface [polypeptide binding]; other site 94122010945 Ribosome recycling factor; Region: RRF_GI; pfam12614 94122010946 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 94122010947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122010948 glycine dehydrogenase; Provisional; Region: PRK05367 94122010949 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 94122010950 tetramer interface [polypeptide binding]; other site 94122010951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122010952 catalytic residue [active] 94122010953 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 94122010954 tetramer interface [polypeptide binding]; other site 94122010955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122010956 catalytic residue [active] 94122010957 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 94122010958 lipoyl attachment site [posttranslational modification]; other site 94122010959 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 94122010960 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 94122010961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010962 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 94122010963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010964 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 94122010965 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 94122010966 Cell division protein ZapA; Region: ZapA; cl01146 94122010967 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 94122010968 dihydromonapterin reductase; Provisional; Region: PRK06483 94122010969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122010970 NAD(P) binding site [chemical binding]; other site 94122010971 active site 94122010972 Protein of unknown function, DUF393; Region: DUF393; cl01136 94122010973 malate dehydrogenase; Provisional; Region: PRK05086 94122010974 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 94122010975 NAD binding site [chemical binding]; other site 94122010976 dimerization interface [polypeptide binding]; other site 94122010977 Substrate binding site [chemical binding]; other site 94122010978 arginine repressor; Provisional; Region: PRK05066 94122010979 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 94122010980 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 94122010981 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 94122010982 NADH(P)-binding; Region: NAD_binding_10; pfam13460 94122010983 NAD binding site [chemical binding]; other site 94122010984 substrate binding site [chemical binding]; other site 94122010985 putative active site [active] 94122010986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122010987 Helix-turn-helix domains; Region: HTH; cl00088 94122010988 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 94122010989 putative effector binding pocket; other site 94122010990 dimerization interface [polypeptide binding]; other site 94122010991 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 94122010992 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 94122010993 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 94122010994 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 94122010995 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 94122010996 Walker A/P-loop; other site 94122010997 ATP binding site [chemical binding]; other site 94122010998 Q-loop/lid; other site 94122010999 ABC transporter signature motif; other site 94122011000 Walker B; other site 94122011001 D-loop; other site 94122011002 H-loop/switch region; other site 94122011003 TOBE domain; Region: TOBE_2; cl01440 94122011004 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 94122011005 dimer interface [polypeptide binding]; other site 94122011006 conserved gate region; other site 94122011007 putative PBP binding loops; other site 94122011008 ABC-ATPase subunit interface; other site 94122011009 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 94122011010 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 94122011011 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 94122011012 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 94122011013 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122011014 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 94122011015 putative C-terminal domain interface [polypeptide binding]; other site 94122011016 putative GSH binding site (G-site) [chemical binding]; other site 94122011017 putative dimer interface [polypeptide binding]; other site 94122011018 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 94122011019 substrate binding pocket (H-site) [chemical binding]; other site 94122011020 N-terminal domain interface [polypeptide binding]; other site 94122011021 ferredoxin-NADP reductase; Provisional; Region: PRK10926 94122011022 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 94122011023 FAD binding pocket [chemical binding]; other site 94122011024 FAD binding motif [chemical binding]; other site 94122011025 phosphate binding motif [ion binding]; other site 94122011026 beta-alpha-beta structure motif; other site 94122011027 NAD binding pocket [chemical binding]; other site 94122011028 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 94122011029 catalytic core [active] 94122011030 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 94122011031 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 94122011032 active site 94122011033 FMN binding site [chemical binding]; other site 94122011034 substrate binding site [chemical binding]; other site 94122011035 3Fe-4S cluster binding site [ion binding]; other site 94122011036 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 94122011037 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 94122011038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011039 Walker A/P-loop; other site 94122011040 ATP binding site [chemical binding]; other site 94122011041 Q-loop/lid; other site 94122011042 ABC transporter signature motif; other site 94122011043 Walker B; other site 94122011044 D-loop; other site 94122011045 H-loop/switch region; other site 94122011046 NeuB family; Region: NeuB; cl00496 94122011047 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 94122011048 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 94122011049 binding surface 94122011050 TPR repeat; Region: TPR_11; pfam13414 94122011051 TPR motif; other site 94122011052 TPR repeat; Region: TPR_11; pfam13414 94122011053 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 94122011054 binding surface 94122011055 TPR motif; other site 94122011056 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 94122011057 Nitrogen regulatory protein P-II; Region: P-II; cl00412 94122011058 Nitrogen regulatory protein P-II; Region: P-II; smart00938 94122011059 Isochorismatase family; Region: Isochorismatase; pfam00857 94122011060 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 94122011061 catalytic triad [active] 94122011062 dimer interface [polypeptide binding]; other site 94122011063 conserved cis-peptide bond; other site 94122011064 LysE type translocator; Region: LysE; cl00565 94122011065 Cupin domain; Region: Cupin_2; cl09118 94122011066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122011067 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122011068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122011069 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 94122011070 Alkaline phosphatase homologues; Region: alkPPc; smart00098 94122011071 active site 94122011072 dimer interface [polypeptide binding]; other site 94122011073 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 94122011074 dimer interface [polypeptide binding]; other site 94122011075 Alkaline phosphatase homologues; Region: alkPPc; smart00098 94122011076 active site 94122011077 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122011078 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 94122011079 N-terminal plug; other site 94122011080 ligand-binding site [chemical binding]; other site 94122011081 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 94122011082 PAS domain; Region: PAS_9; pfam13426 94122011083 PAS domain; Region: PAS_9; pfam13426 94122011084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122011085 metal binding site [ion binding]; metal-binding site 94122011086 active site 94122011087 I-site; other site 94122011088 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 94122011089 DNA-binding site [nucleotide binding]; DNA binding site 94122011090 RNA-binding motif; other site 94122011091 Excalibur calcium-binding domain; Region: Excalibur; cl05460 94122011092 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 94122011093 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 94122011094 active site 94122011095 catalytic triad [active] 94122011096 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 94122011097 PA/protease or protease-like domain interface [polypeptide binding]; other site 94122011098 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 94122011099 catalytic residues [active] 94122011100 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 94122011101 catalytic residues [active] 94122011102 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 94122011103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011104 ABC transporter signature motif; other site 94122011105 Walker B; other site 94122011106 D-loop; other site 94122011107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011108 Walker A/P-loop; other site 94122011109 ATP binding site [chemical binding]; other site 94122011110 Q-loop/lid; other site 94122011111 ABC transporter signature motif; other site 94122011112 Walker B; other site 94122011113 D-loop; other site 94122011114 H-loop/switch region; other site 94122011115 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 94122011116 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 94122011117 dimer interface [polypeptide binding]; other site 94122011118 active site 94122011119 heme binding site [chemical binding]; other site 94122011120 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 94122011121 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 94122011122 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 94122011123 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 94122011124 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122011125 Oxygen tolerance; Region: BatD; pfam13584 94122011126 hypothetical protein; Provisional; Region: PRK13685 94122011127 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 94122011128 metal ion-dependent adhesion site (MIDAS); other site 94122011129 lipoprotein NlpI; Provisional; Region: PRK11189 94122011130 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 94122011131 metal ion-dependent adhesion site (MIDAS); other site 94122011132 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 94122011133 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 94122011134 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 94122011135 metal ion-dependent adhesion site (MIDAS); other site 94122011136 MoxR-like ATPases [General function prediction only]; Region: COG0714 94122011137 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 94122011138 Walker A motif; other site 94122011139 ATP binding site [chemical binding]; other site 94122011140 Walker B motif; other site 94122011141 arginine finger; other site 94122011142 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 94122011143 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 94122011144 FeS/SAM binding site; other site 94122011145 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 94122011146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122011147 Helix-turn-helix domains; Region: HTH; cl00088 94122011148 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 94122011149 putative substrate binding pocket [chemical binding]; other site 94122011150 putative dimerization interface [polypeptide binding]; other site 94122011151 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 94122011152 putative metal binding site [ion binding]; other site 94122011153 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 94122011154 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122011155 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122011156 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 94122011157 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 94122011158 ring oligomerisation interface [polypeptide binding]; other site 94122011159 ATP/Mg binding site [chemical binding]; other site 94122011160 stacking interactions; other site 94122011161 hinge regions; other site 94122011162 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 94122011163 oligomerisation interface [polypeptide binding]; other site 94122011164 mobile loop; other site 94122011165 roof hairpin; other site 94122011166 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 94122011167 MatE; Region: MatE; cl10513 94122011168 MatE; Region: MatE; cl10513 94122011169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122011170 Helix-turn-helix domains; Region: HTH; cl00088 94122011171 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 94122011172 putative effector binding pocket; other site 94122011173 dimerization interface [polypeptide binding]; other site 94122011174 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122011175 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 94122011176 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122011177 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 94122011178 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 94122011179 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 94122011180 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 94122011181 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 94122011182 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 94122011183 DsbD alpha interface [polypeptide binding]; other site 94122011184 catalytic residues [active] 94122011185 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 94122011186 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 94122011187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122011188 galactokinase; Provisional; Region: PRK05101 94122011189 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 94122011190 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 94122011191 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 94122011192 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 94122011193 active site 94122011194 catalytic residues [active] 94122011195 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 94122011196 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 94122011197 NAD(P) binding site [chemical binding]; other site 94122011198 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 94122011199 Protein kinase domain; Region: Pkinase; pfam00069 94122011200 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122011201 active site 94122011202 ATP binding site [chemical binding]; other site 94122011203 substrate binding site [chemical binding]; other site 94122011204 activation loop (A-loop); other site 94122011205 MltD lipid attachment motif; Region: MLTD_N; pfam06474 94122011206 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 94122011207 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 94122011208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122011209 catalytic residue [active] 94122011210 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122011211 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 94122011212 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 94122011213 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 94122011214 Helix-turn-helix domains; Region: HTH; cl00088 94122011215 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 94122011216 substrate binding pocket [chemical binding]; other site 94122011217 dimerization interface [polypeptide binding]; other site 94122011218 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 94122011219 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 94122011220 putative substrate translocation pore; other site 94122011221 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122011222 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122011223 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122011224 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122011225 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122011226 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 94122011227 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 94122011228 dimer interface [polypeptide binding]; other site 94122011229 ssDNA binding site [nucleotide binding]; other site 94122011230 tetramer (dimer of dimers) interface [polypeptide binding]; other site 94122011231 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 94122011232 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122011233 putative substrate translocation pore; other site 94122011234 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 94122011235 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 94122011236 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 94122011237 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 94122011238 M28 Zn-Peptidases; Region: M28_like_2; cd05662 94122011239 metal binding site [ion binding]; metal-binding site 94122011240 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 94122011241 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 94122011242 ATP binding site [chemical binding]; other site 94122011243 Mg++ binding site [ion binding]; other site 94122011244 motif III; other site 94122011245 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 94122011246 nucleotide binding region [chemical binding]; other site 94122011247 ATP-binding site [chemical binding]; other site 94122011248 DbpA RNA binding domain; Region: DbpA; pfam03880 94122011249 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 94122011250 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 94122011251 putative substrate translocation pore; other site 94122011252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122011253 Helix-turn-helix domains; Region: HTH; cl00088 94122011254 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 94122011255 dimerization interface [polypeptide binding]; other site 94122011256 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 94122011257 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 94122011258 active site 94122011259 catalytic tetrad [active] 94122011260 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 94122011261 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 94122011262 active site 94122011263 motif I; other site 94122011264 motif II; other site 94122011265 Predicted permeases [General function prediction only]; Region: RarD; COG2962 94122011266 EamA-like transporter family; Region: EamA; cl01037 94122011267 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 94122011268 Gram-negative bacterial tonB protein; Region: TonB; cl10048 94122011269 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 94122011270 Cytochrome c [Energy production and conversion]; Region: COG3258 94122011271 Cytochrome c; Region: Cytochrom_C; cl11414 94122011272 Cytochrome c; Region: Cytochrom_C; cl11414 94122011273 Cytochrome c; Region: Cytochrom_C; cl11414 94122011274 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 94122011275 Predicted membrane protein [Function unknown]; Region: COG1289 94122011276 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122011277 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 94122011278 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 94122011279 transcriptional regulator SlyA; Provisional; Region: PRK03573 94122011280 Helix-turn-helix domains; Region: HTH; cl00088 94122011281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 94122011282 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 94122011283 dimerization interface [polypeptide binding]; other site 94122011284 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122011285 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122011286 dimer interface [polypeptide binding]; other site 94122011287 putative CheW interface [polypeptide binding]; other site 94122011288 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 94122011289 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 94122011290 FAD binding site [chemical binding]; other site 94122011291 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 94122011292 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 94122011293 putative catalytic residues [active] 94122011294 putative nucleotide binding site [chemical binding]; other site 94122011295 putative aspartate binding site [chemical binding]; other site 94122011296 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 94122011297 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 94122011298 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 94122011299 homodimer interface [polypeptide binding]; other site 94122011300 substrate-cofactor binding pocket; other site 94122011301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122011302 catalytic residue [active] 94122011303 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 94122011304 dimerization interface [polypeptide binding]; other site 94122011305 DNA binding site [nucleotide binding] 94122011306 corepressor binding sites; other site 94122011307 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 94122011308 Polysulphide reductase, NrfD; Region: NrfD; cl01295 94122011309 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 94122011310 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 94122011311 4Fe-4S binding domain; Region: Fer4; cl02805 94122011312 thiosulfate reductase PhsA; Provisional; Region: PRK15488 94122011313 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 94122011314 putative [Fe4-S4] binding site [ion binding]; other site 94122011315 putative molybdopterin cofactor binding site [chemical binding]; other site 94122011316 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 94122011317 putative molybdopterin cofactor binding site; other site 94122011318 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 94122011319 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 94122011320 ATP binding site [chemical binding]; other site 94122011321 active site 94122011322 substrate binding site [chemical binding]; other site 94122011323 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 94122011324 Protein of unknown function (DUF541); Region: SIMPL; cl01077 94122011325 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 94122011326 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 94122011327 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 94122011328 FeS/SAM binding site; other site 94122011329 Domain of unknown function; Region: DUF331; cl01149 94122011330 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 94122011331 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 94122011332 substrate binding pocket [chemical binding]; other site 94122011333 membrane-bound complex binding site; other site 94122011334 hinge residues; other site 94122011335 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 94122011336 N-terminal plug; other site 94122011337 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 94122011338 ligand-binding site [chemical binding]; other site 94122011339 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 94122011340 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 94122011341 Protein of unknown function (DUF615); Region: DUF615; cl01147 94122011342 Spore germination protein; Region: Spore_permease; cl15802 94122011343 amino acid transporter; Region: 2A0306; TIGR00909 94122011344 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 94122011345 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 94122011346 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 94122011347 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 94122011348 ABC-2 type transporter; Region: ABC2_membrane; cl11417 94122011349 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 94122011350 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 94122011351 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 94122011352 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 94122011353 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 94122011354 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 94122011355 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 94122011356 putative active site [active] 94122011357 catalytic triad [active] 94122011358 dimer interface [polypeptide binding]; other site 94122011359 TIGR02099 family protein; Region: TIGR02099 94122011360 AsmA-like C-terminal region; Region: AsmA_2; cl15864 94122011361 ribonuclease G; Provisional; Region: PRK11712 94122011362 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 94122011363 homodimer interface [polypeptide binding]; other site 94122011364 oligonucleotide binding site [chemical binding]; other site 94122011365 Maf-like protein; Region: Maf; pfam02545 94122011366 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 94122011367 active site 94122011368 dimer interface [polypeptide binding]; other site 94122011369 rod shape-determining protein MreD; Region: MreD; cl01087 94122011370 rod shape-determining protein MreC; Region: mreC; TIGR00219 94122011371 rod shape-determining protein MreC; Region: MreC; pfam04085 94122011372 rod shape-determining protein MreB; Provisional; Region: PRK13927 94122011373 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 94122011374 ATP binding site [chemical binding]; other site 94122011375 profilin binding site; other site 94122011376 legume lectins; Region: lectin_L-type; cl14058 94122011377 homotetramer interaction site [polypeptide binding]; other site 94122011378 homodimer interaction site [polypeptide binding]; other site 94122011379 carbohydrate binding site [chemical binding]; other site 94122011380 metal binding site [ion binding]; metal-binding site 94122011381 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122011382 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 94122011383 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 94122011384 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 94122011385 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 94122011386 Transposase [DNA replication, recombination, and repair]; Region: COG5421 94122011387 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 94122011388 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122011389 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 94122011390 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 94122011391 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 94122011392 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 94122011393 Walker A motif; other site 94122011394 ATP binding site [chemical binding]; other site 94122011395 Walker B motif; other site 94122011396 Tetratricopeptide repeat; Region: TPR_16; pfam13432 94122011397 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 94122011398 TPR motif; other site 94122011399 binding surface 94122011400 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 94122011401 binding surface 94122011402 TPR motif; other site 94122011403 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 94122011404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011405 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 94122011406 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 94122011407 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 94122011408 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 94122011409 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 94122011410 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 94122011411 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 94122011412 regulatory protein CsrD; Provisional; Region: PRK11059 94122011413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122011414 metal binding site [ion binding]; metal-binding site 94122011415 active site 94122011416 I-site; other site 94122011417 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 94122011418 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 94122011419 Malic enzyme, N-terminal domain; Region: malic; pfam00390 94122011420 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 94122011421 putative NAD(P) binding site [chemical binding]; other site 94122011422 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 94122011423 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 94122011424 primosome assembly protein PriA; Validated; Region: PRK05580 94122011425 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 94122011426 ATP binding site [chemical binding]; other site 94122011427 putative Mg++ binding site [ion binding]; other site 94122011428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011429 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 94122011430 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 94122011431 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 94122011432 active site 94122011433 HIGH motif; other site 94122011434 KMSK motif region; other site 94122011435 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 94122011436 tRNA binding surface [nucleotide binding]; other site 94122011437 anticodon binding site; other site 94122011438 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 94122011439 Sporulation related domain; Region: SPOR; cl10051 94122011440 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 94122011441 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 94122011442 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 94122011443 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 94122011444 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 94122011445 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 94122011446 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 94122011447 Protein of unknown function (DUF465); Region: DUF465; cl01070 94122011448 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 94122011449 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 94122011450 dimer interface [polypeptide binding]; other site 94122011451 active site 94122011452 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 94122011453 catalytic residues [active] 94122011454 substrate binding site [chemical binding]; other site 94122011455 Mechanosensitive ion channel; Region: MS_channel; pfam00924 94122011456 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 94122011457 Sel1 repeat; Region: Sel1; cl02723 94122011458 Sel1 repeat; Region: Sel1; cl02723 94122011459 Sel1 repeat; Region: Sel1; cl02723 94122011460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122011461 Helix-turn-helix domains; Region: HTH; cl00088 94122011462 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 94122011463 dimerization interface [polypeptide binding]; other site 94122011464 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 94122011465 classical (c) SDRs; Region: SDR_c; cd05233 94122011466 NAD(P) binding site [chemical binding]; other site 94122011467 active site 94122011468 Cytochrome c; Region: Cytochrom_C; cl11414 94122011469 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 94122011470 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 94122011471 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 94122011472 Putative catalytic domain of Synechocystis sp. Sll1306 protein and other bacterial homologs; Region: CE4_Sll1306_like; cd10978 94122011473 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 94122011474 putative active site [active] 94122011475 putative catalytic site [active] 94122011476 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 94122011477 Helix-turn-helix domains; Region: HTH; cl00088 94122011478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122011479 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 94122011480 putative effector binding pocket; other site 94122011481 dimerization interface [polypeptide binding]; other site 94122011482 NMT1-like family; Region: NMT1_2; cl15260 94122011483 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 94122011484 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 94122011485 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 94122011486 ATP binding site [chemical binding]; other site 94122011487 Mg2+ binding site [ion binding]; other site 94122011488 G-X-G motif; other site 94122011489 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 94122011490 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 94122011491 active site 94122011492 phosphorylation site [posttranslational modification] 94122011493 intermolecular recognition site; other site 94122011494 dimerization interface [polypeptide binding]; other site 94122011495 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 94122011496 DNA binding residues [nucleotide binding] 94122011497 dimerization interface [polypeptide binding]; other site 94122011498 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 94122011499 active site 94122011500 HslU subunit interaction site [polypeptide binding]; other site 94122011501 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 94122011502 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 94122011503 Walker A motif; other site 94122011504 ATP binding site [chemical binding]; other site 94122011505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011506 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 94122011507 Protein of unknown function (DUF971); Region: DUF971; cl01414 94122011508 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 94122011509 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 94122011510 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 94122011511 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 94122011512 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 94122011513 NADP binding site [chemical binding]; other site 94122011514 homodimer interface [polypeptide binding]; other site 94122011515 active site 94122011516 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 94122011517 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 94122011518 active site 94122011519 phosphorylation site [posttranslational modification] 94122011520 intermolecular recognition site; other site 94122011521 dimerization interface [polypeptide binding]; other site 94122011522 Helix-turn-helix domains; Region: HTH; cl00088 94122011523 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 94122011524 ATP binding site [chemical binding]; other site 94122011525 Mg2+ binding site [ion binding]; other site 94122011526 G-X-G motif; other site 94122011527 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 94122011528 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 94122011529 NADP binding site [chemical binding]; other site 94122011530 active site 94122011531 putative substrate binding site [chemical binding]; other site 94122011532 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 94122011533 metal binding site [ion binding]; metal-binding site 94122011534 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 94122011535 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 94122011536 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 94122011537 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 94122011538 active site 94122011539 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 94122011540 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 94122011541 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 94122011542 N-terminal plug; other site 94122011543 ligand-binding site [chemical binding]; other site 94122011544 Domain of unknown function (DUF386); Region: DUF386; cl01047 94122011545 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 94122011546 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 94122011547 DHHA2 domain; Region: DHHA2; pfam02833 94122011548 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 94122011549 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 94122011550 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 94122011551 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 94122011552 active site 94122011553 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 94122011554 Arginase family; Region: Arginase; cl00306 94122011555 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 94122011556 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 94122011557 S-adenosylmethionine binding site [chemical binding]; other site 94122011558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 94122011559 SCP-2 sterol transfer family; Region: SCP2; cl01225 94122011560 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 94122011561 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122011562 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 94122011563 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 94122011564 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 94122011565 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 94122011566 active site 94122011567 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 94122011568 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 94122011569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122011570 metal binding site [ion binding]; metal-binding site 94122011571 active site 94122011572 I-site; other site 94122011573 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 94122011574 dimer interface [polypeptide binding]; other site 94122011575 allosteric magnesium binding site [ion binding]; other site 94122011576 active site 94122011577 aspartate-rich active site metal binding site; other site 94122011578 Schiff base residues; other site 94122011579 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 94122011580 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 94122011581 SEC-C motif; Region: SEC-C; pfam02810 94122011582 Peptidase family M23; Region: Peptidase_M23; pfam01551 94122011583 Protein of unknown function (DUF721); Region: DUF721; cl02324 94122011584 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 94122011585 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 94122011586 cell division protein FtsZ; Validated; Region: PRK09330 94122011587 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 94122011588 nucleotide binding site [chemical binding]; other site 94122011589 SulA interaction site; other site 94122011590 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 94122011591 Cell division protein FtsA; Region: FtsA; cl11496 94122011592 Cell division protein FtsA; Region: FtsA; cl11496 94122011593 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 94122011594 Cell division protein FtsQ; Region: FtsQ; pfam03799 94122011595 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 94122011596 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 94122011597 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 94122011598 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 94122011599 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 94122011600 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 94122011601 active site 94122011602 homodimer interface [polypeptide binding]; other site 94122011603 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 94122011604 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 94122011605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 94122011606 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 94122011607 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 94122011608 Mg++ binding site [ion binding]; other site 94122011609 putative catalytic motif [active] 94122011610 putative substrate binding site [chemical binding]; other site 94122011611 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 94122011612 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 94122011613 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 94122011614 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 94122011615 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 94122011616 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 94122011617 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 94122011618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 94122011619 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 94122011620 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 94122011621 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122011622 Septum formation initiator; Region: DivIC; cl11433 94122011623 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 94122011624 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 94122011625 cell division protein MraZ; Reviewed; Region: PRK00326 94122011626 MraZ protein; Region: MraZ; pfam02381 94122011627 MraZ protein; Region: MraZ; pfam02381 94122011628 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122011629 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 94122011630 glycerol kinase; Provisional; Region: glpK; PRK00047 94122011631 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 94122011632 N- and C-terminal domain interface [polypeptide binding]; other site 94122011633 active site 94122011634 MgATP binding site [chemical binding]; other site 94122011635 catalytic site [active] 94122011636 metal binding site [ion binding]; metal-binding site 94122011637 glycerol binding site [chemical binding]; other site 94122011638 homotetramer interface [polypeptide binding]; other site 94122011639 homodimer interface [polypeptide binding]; other site 94122011640 FBP binding site [chemical binding]; other site 94122011641 protein IIAGlc interface [polypeptide binding]; other site 94122011642 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 94122011643 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 94122011644 substrate binding site [chemical binding]; other site 94122011645 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 94122011646 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 94122011647 substrate binding site [chemical binding]; other site 94122011648 ligand binding site [chemical binding]; other site 94122011649 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 94122011650 tartrate dehydrogenase; Provisional; Region: PRK08194 94122011651 2-isopropylmalate synthase; Validated; Region: PRK00915 94122011652 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 94122011653 active site 94122011654 catalytic residues [active] 94122011655 metal binding site [ion binding]; metal-binding site 94122011656 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 94122011657 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 94122011658 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 94122011659 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 94122011660 ATP binding site [chemical binding]; other site 94122011661 putative Mg++ binding site [ion binding]; other site 94122011662 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 94122011663 nucleotide binding region [chemical binding]; other site 94122011664 ATP-binding site [chemical binding]; other site 94122011665 RQC domain; Region: RQC; cl09632 94122011666 HRDC domain; Region: HRDC; cl02578 94122011667 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 94122011668 CoenzymeA binding site [chemical binding]; other site 94122011669 subunit interaction site [polypeptide binding]; other site 94122011670 PHB binding site; other site 94122011671 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 94122011672 N-acetylglutamate synthase; Validated; Region: PRK05279 94122011673 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 94122011674 putative feedback inhibition sensing region; other site 94122011675 putative nucleotide binding site [chemical binding]; other site 94122011676 putative substrate binding site [chemical binding]; other site 94122011677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122011678 Coenzyme A binding pocket [chemical binding]; other site 94122011679 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 94122011680 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 94122011681 hypothetical protein; Reviewed; Region: PRK00024 94122011682 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 94122011683 MPN+ (JAMM) motif; other site 94122011684 Zinc-binding site [ion binding]; other site 94122011685 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 94122011686 Flavoprotein; Region: Flavoprotein; cl08021 94122011687 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 94122011688 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 94122011689 trimer interface [polypeptide binding]; other site 94122011690 active site 94122011691 division inhibitor protein; Provisional; Region: slmA; PRK09480 94122011692 Helix-turn-helix domains; Region: HTH; cl00088 94122011693 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122011694 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 94122011695 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 94122011696 GTP cyclohydrolase I; Provisional; Region: PLN03044 94122011697 active site 94122011698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 94122011699 active site 94122011700 ribonuclease PH; Reviewed; Region: rph; PRK00173 94122011701 Ribonuclease PH; Region: RNase_PH_bact; cd11362 94122011702 hexamer interface [polypeptide binding]; other site 94122011703 active site 94122011704 hypothetical protein; Provisional; Region: PRK11820 94122011705 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 94122011706 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 94122011707 integrase; Provisional; Region: PRK09692 94122011708 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 94122011709 active site 94122011710 Int/Topo IB signature motif; other site 94122011711 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122011712 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 94122011713 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 94122011714 ligand binding site [chemical binding]; other site 94122011715 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 94122011716 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 94122011717 ATP binding site [chemical binding]; other site 94122011718 putative Mg++ binding site [ion binding]; other site 94122011719 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 94122011720 nucleotide binding region [chemical binding]; other site 94122011721 ATP-binding site [chemical binding]; other site 94122011722 Restriction endonuclease; Region: Mrr_cat; cl00516 94122011723 Protein of unknown function DUF45; Region: DUF45; cl00636 94122011724 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 94122011725 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 94122011726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011727 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122011728 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 94122011729 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 94122011730 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 94122011731 HsdM N-terminal domain; Region: HsdM_N; pfam12161 94122011732 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 94122011733 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; cd00085 94122011734 active site 94122011735 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 94122011736 GIY-YIG motif/motif A; other site 94122011737 putative active site [active] 94122011738 putative metal binding site [ion binding]; other site 94122011739 dUMP phosphatase; Provisional; Region: PRK09449 94122011740 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 94122011741 motif II; other site 94122011742 Protein of unknown function, DUF606; Region: DUF606; cl01273 94122011743 Protein of unknown function, DUF606; Region: DUF606; cl01273 94122011744 transcriptional regulator; Provisional; Region: PRK10632 94122011745 Helix-turn-helix domains; Region: HTH; cl00088 94122011746 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 94122011747 putative effector binding pocket; other site 94122011748 dimerization interface [polypeptide binding]; other site 94122011749 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 94122011750 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 94122011751 non-specific DNA binding site [nucleotide binding]; other site 94122011752 salt bridge; other site 94122011753 sequence-specific DNA binding site [nucleotide binding]; other site 94122011754 Fic family protein [Function unknown]; Region: COG3177 94122011755 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 94122011756 Fic/DOC family; Region: Fic; cl00960 94122011757 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 94122011758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 94122011759 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 94122011760 putative substrate translocation pore; other site 94122011761 Phosphotransferase enzyme family; Region: APH; pfam01636 94122011762 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122011763 substrate binding site [chemical binding]; other site 94122011764 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 94122011765 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 94122011766 active site 94122011767 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 94122011768 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 94122011769 catalytic site [active] 94122011770 G-X2-G-X-G-K; other site 94122011771 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 94122011772 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 94122011773 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 94122011774 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 94122011775 synthetase active site [active] 94122011776 NTP binding site [chemical binding]; other site 94122011777 metal binding site [ion binding]; metal-binding site 94122011778 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 94122011779 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 94122011780 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 94122011781 homotrimer interaction site [polypeptide binding]; other site 94122011782 putative active site [active] 94122011783 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 94122011784 AMP-binding enzyme; Region: AMP-binding; cl15778 94122011785 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 94122011786 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 94122011787 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 94122011788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 94122011789 Histidine kinase; Region: HisKA_3; pfam07730 94122011790 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 94122011791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 94122011792 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 94122011793 active site 94122011794 phosphorylation site [posttranslational modification] 94122011795 intermolecular recognition site; other site 94122011796 dimerization interface [polypeptide binding]; other site 94122011797 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 94122011798 DNA binding residues [nucleotide binding] 94122011799 dimerization interface [polypeptide binding]; other site 94122011800 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 94122011801 Mg chelatase-related protein; Region: TIGR00368 94122011802 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 94122011803 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 94122011804 Walker A motif; other site 94122011805 ATP binding site [chemical binding]; other site 94122011806 Walker B motif; other site 94122011807 arginine finger; other site 94122011808 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 94122011809 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 94122011810 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 94122011811 putative acyl-acceptor binding pocket; other site 94122011812 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 94122011813 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 94122011814 putative acyl-acceptor binding pocket; other site 94122011815 Protein of unknown function (DUF523); Region: DUF523; cl00733 94122011816 Transcriptional regulators [Transcription]; Region: GntR; COG1802 94122011817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 94122011818 DNA-binding site [nucleotide binding]; DNA binding site 94122011819 FCD domain; Region: FCD; cl11656 94122011820 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 94122011821 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 94122011822 tetramer interface [polypeptide binding]; other site 94122011823 active site 94122011824 Mg2+/Mn2+ binding site [ion binding]; other site 94122011825 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) catalyzes...; Region: Ec2MCS_like; cd06108 94122011826 dimer interface [polypeptide binding]; other site 94122011827 Citrate synthase; Region: Citrate_synt; pfam00285 94122011828 active site 94122011829 citrylCoA binding site [chemical binding]; other site 94122011830 oxalacetate/citrate binding site [chemical binding]; other site 94122011831 coenzyme A binding site [chemical binding]; other site 94122011832 catalytic triad [active] 94122011833 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 94122011834 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 94122011835 substrate binding site [chemical binding]; other site 94122011836 ligand binding site [chemical binding]; other site 94122011837 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 94122011838 substrate binding site [chemical binding]; other site 94122011839 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 94122011840 PrpF protein; Region: PrpF; pfam04303 94122011841 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 94122011842 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 94122011843 PAS domain S-box; Region: sensory_box; TIGR00229 94122011844 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 94122011845 putative active site [active] 94122011846 heme pocket [chemical binding]; other site 94122011847 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 94122011848 PAS domain; Region: PAS_9; pfam13426 94122011849 putative active site [active] 94122011850 heme pocket [chemical binding]; other site 94122011851 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122011852 metal binding site [ion binding]; metal-binding site 94122011853 active site 94122011854 I-site; other site 94122011855 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 94122011856 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 94122011857 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 94122011858 homodimer interface [polypeptide binding]; other site 94122011859 substrate-cofactor binding pocket; other site 94122011860 catalytic residue [active] 94122011861 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 94122011862 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 94122011863 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 94122011864 homotrimer interaction site [polypeptide binding]; other site 94122011865 putative active site [active] 94122011866 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 94122011867 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 94122011868 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 94122011869 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 94122011870 catalytic residues [active] 94122011871 hinge region; other site 94122011872 alpha helical domain; other site 94122011873 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122011874 active site 94122011875 ATP binding site [chemical binding]; other site 94122011876 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 94122011877 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 94122011878 DsrE/DsrF-like family; Region: DrsE; cl00672 94122011879 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 94122011880 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 94122011881 putative amphipathic alpha helix; other site 94122011882 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122011883 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 94122011884 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 94122011885 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 94122011886 Helix-turn-helix domains; Region: HTH; cl00088 94122011887 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 94122011888 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122011889 metal binding site [ion binding]; metal-binding site 94122011890 active site 94122011891 I-site; other site 94122011892 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 94122011893 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 94122011894 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 94122011895 TniQ; Region: TniQ; pfam06527 94122011896 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 94122011897 5' RNA guide strand anchoring site; other site 94122011898 active site 94122011899 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 94122011900 non-specific DNA binding site [nucleotide binding]; other site 94122011901 salt bridge; other site 94122011902 sequence-specific DNA binding site [nucleotide binding]; other site 94122011903 AAA domain; Region: AAA_22; pfam13401 94122011904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122011905 Integrase core domain; Region: rve; cl01316 94122011906 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 94122011907 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 94122011908 Helix-turn-helix domains; Region: HTH; cl00088 94122011909 OpgC protein; Region: OpgC_C; cl00792 94122011910 Acyltransferase family; Region: Acyl_transf_3; pfam01757 94122011911 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 94122011912 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 94122011913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122011914 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 94122011915 substrate binding site [chemical binding]; other site 94122011916 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 94122011917 ornithine decarboxylase; Provisional; Region: PRK13578 94122011918 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 94122011919 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 94122011920 homodimer interface [polypeptide binding]; other site 94122011921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122011922 catalytic residue [active] 94122011923 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 94122011924 putrescine transporter; Provisional; Region: potE; PRK10655 94122011925 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 94122011926 trimer interface [polypeptide binding]; other site 94122011927 eyelet of channel; other site 94122011928 hypothetical protein; Provisional; Region: PRK01254 94122011929 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 94122011930 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 94122011931 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 94122011932 MAPEG family; Region: MAPEG; cl09190 94122011933 Uncharacterized conserved protein [Function unknown]; Region: COG2966 94122011934 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 94122011935 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 94122011936 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 94122011937 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 94122011938 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 94122011939 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 94122011940 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 94122011941 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 94122011942 putative ligand binding site [chemical binding]; other site 94122011943 Restriction endonuclease; Region: Mrr_cat; cl00516 94122011944 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 94122011945 dimer interface [polypeptide binding]; other site 94122011946 active site 94122011947 outer membrane lipoprotein; Provisional; Region: PRK11023 94122011948 BON domain; Region: BON; cl02771 94122011949 BON domain; Region: BON; cl02771 94122011950 EamA-like transporter family; Region: EamA; cl01037 94122011951 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 94122011952 Helix-turn-helix domains; Region: HTH; cl00088 94122011953 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 94122011954 dimerization interface [polypeptide binding]; other site 94122011955 substrate binding pocket [chemical binding]; other site 94122011956 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 94122011957 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 94122011958 active site 94122011959 HIGH motif; other site 94122011960 dimer interface [polypeptide binding]; other site 94122011961 KMSKS motif; other site 94122011962 phosphoglycolate phosphatase; Provisional; Region: PRK13222 94122011963 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 94122011964 motif II; other site 94122011965 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 94122011966 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 94122011967 substrate binding site [chemical binding]; other site 94122011968 hexamer interface [polypeptide binding]; other site 94122011969 metal binding site [ion binding]; metal-binding site 94122011970 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 94122011971 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 94122011972 AAA domain; Region: AAA_22; pfam13401 94122011973 Sporulation related domain; Region: SPOR; cl10051 94122011974 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 94122011975 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 94122011976 active site 94122011977 dimer interface [polypeptide binding]; other site 94122011978 metal binding site [ion binding]; metal-binding site 94122011979 shikimate kinase; Reviewed; Region: aroK; PRK00131 94122011980 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 94122011981 ADP binding site [chemical binding]; other site 94122011982 magnesium binding site [ion binding]; other site 94122011983 putative shikimate binding site; other site 94122011984 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 94122011985 Secretin and TonB N terminus short domain; Region: STN; cl06624 94122011986 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 94122011987 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 94122011988 Pilus assembly protein, PilP; Region: PilP; pfam04351 94122011989 Pilus assembly protein, PilO; Region: PilO; cl01234 94122011990 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 94122011991 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 94122011992 Cell division protein FtsA; Region: FtsA; cl11496 94122011993 Competence protein A; Region: Competence_A; pfam11104 94122011994 Cell division protein FtsA; Region: FtsA; cl11496 94122011995 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 94122011996 Transglycosylase; Region: Transgly; cl07896 94122011997 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 94122011998 argininosuccinate lyase; Provisional; Region: PRK04833 94122011999 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 94122012000 active sites [active] 94122012001 tetramer interface [polypeptide binding]; other site 94122012002 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 94122012003 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 94122012004 ANP binding site [chemical binding]; other site 94122012005 Substrate Binding Site II [chemical binding]; other site 94122012006 Substrate Binding Site I [chemical binding]; other site 94122012007 ornithine carbamoyltransferase; Provisional; Region: PRK14805 94122012008 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 94122012009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012010 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 94122012011 nucleotide binding site [chemical binding]; other site 94122012012 substrate binding site [chemical binding]; other site 94122012013 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 94122012014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012015 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 94122012016 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 94122012017 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 94122012018 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 94122012019 competence damage-inducible protein A; Provisional; Region: PRK00549 94122012020 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 94122012021 putative MPT binding site; other site 94122012022 Competence-damaged protein; Region: CinA; cl00666 94122012023 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 94122012024 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 94122012025 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 94122012026 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 94122012027 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 94122012028 Ferredoxin [Energy production and conversion]; Region: COG1146 94122012029 4Fe-4S binding domain; Region: Fer4; cl02805 94122012030 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 94122012031 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 94122012032 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 94122012033 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 94122012034 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 94122012035 [4Fe-4S] binding site [ion binding]; other site 94122012036 molybdopterin cofactor binding site; other site 94122012037 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 94122012038 molybdopterin cofactor binding site; other site 94122012039 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 94122012040 4Fe-4S binding domain; Region: Fer4; cl02805 94122012041 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 94122012042 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 94122012043 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 94122012044 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 94122012045 [4Fe-4S] binding site [ion binding]; other site 94122012046 molybdopterin cofactor binding site; other site 94122012047 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 94122012048 molybdopterin cofactor binding site; other site 94122012049 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 94122012050 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 94122012051 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 94122012052 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122012053 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 94122012054 N-terminal plug; other site 94122012055 ligand-binding site [chemical binding]; other site 94122012056 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 94122012057 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122012058 dimer interface [polypeptide binding]; other site 94122012059 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 94122012060 putative CheW interface [polypeptide binding]; other site 94122012061 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 94122012062 Membrane transport protein; Region: Mem_trans; cl09117 94122012063 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 94122012064 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 94122012065 FeS/SAM binding site; other site 94122012066 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 94122012067 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 94122012068 enterobactin receptor protein; Provisional; Region: PRK13483 94122012069 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 94122012070 N-terminal plug; other site 94122012071 ligand-binding site [chemical binding]; other site 94122012072 transcriptional regulator; Provisional; Region: PRK10632 94122012073 Helix-turn-helix domains; Region: HTH; cl00088 94122012074 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 94122012075 putative effector binding pocket; other site 94122012076 dimerization interface [polypeptide binding]; other site 94122012077 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 94122012078 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 94122012079 active site 94122012080 nucleophile elbow; other site 94122012081 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 94122012082 Helix-turn-helix domains; Region: HTH; cl00088 94122012083 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 94122012084 substrate binding pocket [chemical binding]; other site 94122012085 dimerization interface [polypeptide binding]; other site 94122012086 EamA-like transporter family; Region: EamA; cl01037 94122012087 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 94122012088 EamA-like transporter family; Region: EamA; cl01037 94122012089 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 94122012090 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 94122012091 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 94122012092 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 94122012093 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122012094 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122012095 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122012096 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 94122012097 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 94122012098 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 94122012099 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 94122012100 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 94122012101 metal binding site [ion binding]; metal-binding site 94122012102 putative dimer interface [polypeptide binding]; other site 94122012103 Predicted transcriptional regulator [Transcription]; Region: COG2378 94122012104 Helix-turn-helix domains; Region: HTH; cl00088 94122012105 WYL domain; Region: WYL; cl14852 94122012106 cell division protein FtsZ; Validated; Region: PRK09330 94122012107 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 94122012108 nucleotide binding site [chemical binding]; other site 94122012109 SulA interaction site; other site 94122012110 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 94122012111 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 94122012112 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 94122012113 PAS domain; Region: PAS_9; pfam13426 94122012114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122012115 metal binding site [ion binding]; metal-binding site 94122012116 active site 94122012117 I-site; other site 94122012118 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 94122012119 DTW domain; Region: DTW; cl01221 94122012120 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 94122012121 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 94122012122 putative substrate translocation pore; other site 94122012123 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 94122012124 Helix-turn-helix domains; Region: HTH; cl00088 94122012125 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 94122012126 substrate binding pocket [chemical binding]; other site 94122012127 dimerization interface [polypeptide binding]; other site 94122012128 Cache domain; Region: Cache_1; pfam02743 94122012129 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 94122012130 dimerization interface [polypeptide binding]; other site 94122012131 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122012132 dimer interface [polypeptide binding]; other site 94122012133 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 94122012134 putative CheW interface [polypeptide binding]; other site 94122012135 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 94122012136 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 94122012137 Sel1 repeat; Region: Sel1; cl02723 94122012138 Sel1 repeat; Region: Sel1; cl02723 94122012139 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 94122012140 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 94122012141 putative metal binding site [ion binding]; other site 94122012142 HDOD domain; Region: HDOD; pfam08668 94122012143 Gram-negative bacterial tonB protein; Region: TonB; cl10048 94122012144 putative transporter; Provisional; Region: PRK11021 94122012145 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 94122012146 Helix-turn-helix domains; Region: HTH; cl00088 94122012147 AsnC family; Region: AsnC_trans_reg; pfam01037 94122012148 Polysulphide reductase, NrfD; Region: NrfD; cl01295 94122012149 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 94122012150 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 94122012151 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 94122012152 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 94122012153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 94122012154 Helix-turn-helix domains; Region: HTH; cl00088 94122012155 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 94122012156 dimerization interface [polypeptide binding]; other site 94122012157 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 94122012158 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 94122012159 dimer interface [polypeptide binding]; other site 94122012160 tetramer interface [polypeptide binding]; other site 94122012161 PYR/PP interface [polypeptide binding]; other site 94122012162 TPP binding site [chemical binding]; other site 94122012163 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 94122012164 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 94122012165 TPP-binding site; other site 94122012166 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 94122012167 O-succinylbenzoate synthase; Provisional; Region: PRK05105 94122012168 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 94122012169 active site 94122012170 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 94122012171 AMP-binding enzyme; Region: AMP-binding; cl15778 94122012172 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 94122012173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 94122012174 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 94122012175 DNA binding residues [nucleotide binding] 94122012176 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 94122012177 FtsX-like permease family; Region: FtsX; cl15850 94122012178 cell division protein FtsE; Provisional; Region: PRK10908 94122012179 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 94122012180 Walker A/P-loop; other site 94122012181 ATP binding site [chemical binding]; other site 94122012182 Q-loop/lid; other site 94122012183 ABC transporter signature motif; other site 94122012184 Walker B; other site 94122012185 D-loop; other site 94122012186 H-loop/switch region; other site 94122012187 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 94122012188 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 94122012189 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 94122012190 P loop; other site 94122012191 GTP binding site [chemical binding]; other site 94122012192 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 94122012193 S-adenosylmethionine binding site [chemical binding]; other site 94122012194 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 94122012195 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 94122012196 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 94122012197 conserved cys residue [active] 94122012198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 94122012199 Isochorismatase family; Region: Isochorismatase; pfam00857 94122012200 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 94122012201 catalytic triad [active] 94122012202 conserved cis-peptide bond; other site 94122012203 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 94122012204 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 94122012205 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 94122012206 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 94122012207 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 94122012208 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 94122012209 B1 nucleotide binding pocket [chemical binding]; other site 94122012210 B2 nucleotide binding pocket [chemical binding]; other site 94122012211 CAS motifs; other site 94122012212 active site 94122012213 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 94122012214 dimerization interface [polypeptide binding]; other site 94122012215 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122012216 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122012217 dimer interface [polypeptide binding]; other site 94122012218 putative CheW interface [polypeptide binding]; other site 94122012219 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 94122012220 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 94122012221 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 94122012222 aromatic amino acid transport protein; Region: araaP; TIGR00837 94122012223 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 94122012224 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 94122012225 putative acyl-acceptor binding pocket; other site 94122012226 LexA repressor; Validated; Region: PRK00215 94122012227 Helix-turn-helix domains; Region: HTH; cl00088 94122012228 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 94122012229 Catalytic site [active] 94122012230 Cell division inhibitor SulA; Region: SulA; cl01880 94122012231 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 94122012232 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 94122012233 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122012234 Cytochrome c; Region: Cytochrom_C; cl11414 94122012235 Cytochrome c; Region: Cytochrom_C; cl11414 94122012236 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 94122012237 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 94122012238 Subunit I/III interface [polypeptide binding]; other site 94122012239 D-pathway; other site 94122012240 Subunit I/VIIc interface [polypeptide binding]; other site 94122012241 Subunit I/IV interface [polypeptide binding]; other site 94122012242 Subunit I/II interface [polypeptide binding]; other site 94122012243 Low-spin heme (heme a) binding site [chemical binding]; other site 94122012244 Subunit I/VIIa interface [polypeptide binding]; other site 94122012245 Subunit I/VIa interface [polypeptide binding]; other site 94122012246 Dimer interface; other site 94122012247 Putative water exit pathway; other site 94122012248 Binuclear center (heme a3/CuB) [ion binding]; other site 94122012249 K-pathway; other site 94122012250 Subunit I/Vb interface [polypeptide binding]; other site 94122012251 Putative proton exit pathway; other site 94122012252 Subunit I/VIb interface; other site 94122012253 Subunit I/VIc interface [polypeptide binding]; other site 94122012254 Electron transfer pathway; other site 94122012255 Subunit I/VIIIb interface [polypeptide binding]; other site 94122012256 Subunit I/VIIb interface [polypeptide binding]; other site 94122012257 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 94122012258 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 94122012259 Subunit III/VIIa interface [polypeptide binding]; other site 94122012260 Phospholipid binding site [chemical binding]; other site 94122012261 Subunit I/III interface [polypeptide binding]; other site 94122012262 Subunit III/VIb interface [polypeptide binding]; other site 94122012263 Subunit III/VIa interface; other site 94122012264 Subunit III/Vb interface [polypeptide binding]; other site 94122012265 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 94122012266 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 94122012267 UbiA prenyltransferase family; Region: UbiA; cl00337 94122012268 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 94122012269 Cu(I) binding site [ion binding]; other site 94122012270 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 94122012271 putative active site [active] 94122012272 putative metal binding site [ion binding]; other site 94122012273 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 94122012274 MatE; Region: MatE; cl10513 94122012275 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 94122012276 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 94122012277 NifU-like domain; Region: NifU; cl00484 94122012278 FMN-binding domain; Region: FMN_bind; cl01081 94122012279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012280 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 94122012281 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 94122012282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 94122012283 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 94122012284 dimer interface [polypeptide binding]; other site 94122012285 phosphorylation site [posttranslational modification] 94122012286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122012287 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 94122012288 active site 94122012289 phosphorylation site [posttranslational modification] 94122012290 intermolecular recognition site; other site 94122012291 dimerization interface [polypeptide binding]; other site 94122012292 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 94122012293 DNA binding site [nucleotide binding] 94122012294 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 94122012295 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 94122012296 dimerization interface [polypeptide binding]; other site 94122012297 DNA binding residues [nucleotide binding] 94122012298 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 94122012299 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 94122012300 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 94122012301 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 94122012302 Sulfatase; Region: Sulfatase; cl10460 94122012303 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 94122012304 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 94122012305 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 94122012306 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 94122012307 RNA binding site [nucleotide binding]; other site 94122012308 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 94122012309 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 94122012310 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 94122012311 Response regulator receiver domain; Region: Response_reg; pfam00072 94122012312 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 94122012313 active site 94122012314 phosphorylation site [posttranslational modification] 94122012315 intermolecular recognition site; other site 94122012316 dimerization interface [polypeptide binding]; other site 94122012317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122012318 metal binding site [ion binding]; metal-binding site 94122012319 active site 94122012320 I-site; other site 94122012321 CHASE domain; Region: CHASE; cl01369 94122012322 PAS domain S-box; Region: sensory_box; TIGR00229 94122012323 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 94122012324 putative active site [active] 94122012325 heme pocket [chemical binding]; other site 94122012326 PAS domain; Region: PAS_9; pfam13426 94122012327 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 94122012328 putative active site [active] 94122012329 heme pocket [chemical binding]; other site 94122012330 PAS domain; Region: PAS_9; pfam13426 94122012331 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 94122012332 putative active site [active] 94122012333 heme pocket [chemical binding]; other site 94122012334 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 94122012335 PAS fold; Region: PAS_3; pfam08447 94122012336 putative active site [active] 94122012337 heme pocket [chemical binding]; other site 94122012338 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 94122012339 dimer interface [polypeptide binding]; other site 94122012340 phosphorylation site [posttranslational modification] 94122012341 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 94122012342 ATP binding site [chemical binding]; other site 94122012343 Mg2+ binding site [ion binding]; other site 94122012344 G-X-G motif; other site 94122012345 Response regulator receiver domain; Region: Response_reg; pfam00072 94122012346 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 94122012347 active site 94122012348 phosphorylation site [posttranslational modification] 94122012349 intermolecular recognition site; other site 94122012350 dimerization interface [polypeptide binding]; other site 94122012351 Response regulator receiver domain; Region: Response_reg; pfam00072 94122012352 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 94122012353 active site 94122012354 phosphorylation site [posttranslational modification] 94122012355 intermolecular recognition site; other site 94122012356 dimerization interface [polypeptide binding]; other site 94122012357 osmolarity response regulator; Provisional; Region: ompR; PRK09468 94122012358 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 94122012359 active site 94122012360 phosphorylation site [posttranslational modification] 94122012361 intermolecular recognition site; other site 94122012362 dimerization interface [polypeptide binding]; other site 94122012363 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 94122012364 DNA binding site [nucleotide binding] 94122012365 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 94122012366 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 94122012367 dimerization interface [polypeptide binding]; other site 94122012368 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 94122012369 dimer interface [polypeptide binding]; other site 94122012370 phosphorylation site [posttranslational modification] 94122012371 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 94122012372 ATP binding site [chemical binding]; other site 94122012373 Mg2+ binding site [ion binding]; other site 94122012374 G-X-G motif; other site 94122012375 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 94122012376 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 94122012377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 94122012378 dimer interface [polypeptide binding]; other site 94122012379 putative CheW interface [polypeptide binding]; other site 94122012380 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 94122012381 catalytic triad [active] 94122012382 dimer interface [polypeptide binding]; other site 94122012383 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 94122012384 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 94122012385 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 94122012386 active site 94122012387 phosphorylation site [posttranslational modification] 94122012388 intermolecular recognition site; other site 94122012389 dimerization interface [polypeptide binding]; other site 94122012390 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 94122012391 DNA binding site [nucleotide binding] 94122012392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 94122012393 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 94122012394 dimer interface [polypeptide binding]; other site 94122012395 phosphorylation site [posttranslational modification] 94122012396 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 94122012397 ATP binding site [chemical binding]; other site 94122012398 Mg2+ binding site [ion binding]; other site 94122012399 G-X-G motif; other site 94122012400 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 94122012401 ribonuclease E; Reviewed; Region: rne; PRK10811 94122012402 MASE1; Region: MASE1; pfam05231 94122012403 CHASE domain; Region: CHASE; cl01369 94122012404 PAS domain S-box; Region: sensory_box; TIGR00229 94122012405 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 94122012406 putative active site [active] 94122012407 heme pocket [chemical binding]; other site 94122012408 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 94122012409 PAS domain; Region: PAS_9; pfam13426 94122012410 putative active site [active] 94122012411 heme pocket [chemical binding]; other site 94122012412 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 94122012413 metal binding site [ion binding]; metal-binding site 94122012414 active site 94122012415 I-site; other site 94122012416 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 94122012417 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 94122012418 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 94122012419 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 94122012420 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 94122012421 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 94122012422 D-pathway; other site 94122012423 Putative ubiquinol binding site [chemical binding]; other site 94122012424 Low-spin heme (heme b) binding site [chemical binding]; other site 94122012425 Putative water exit pathway; other site 94122012426 Binuclear center (heme o3/CuB) [ion binding]; other site 94122012427 K-pathway; other site 94122012428 Putative proton exit pathway; other site 94122012429 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 94122012430 Subunit I/III interface [polypeptide binding]; other site 94122012431 Subunit III/IV interface [polypeptide binding]; other site 94122012432 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 94122012433 UbiA prenyltransferase family; Region: UbiA; cl00337 94122012434 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 94122012435 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 94122012436 active site 94122012437 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 94122012438 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 94122012439 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 94122012440 N-acetyl-D-glucosamine binding site [chemical binding]; other site 94122012441 catalytic residue [active] 94122012442 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 94122012443 LemA family; Region: LemA; cl00742 94122012444 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 94122012445 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 94122012446 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 94122012447 Protein export membrane protein; Region: SecD_SecF; cl14618 94122012448 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 94122012449 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 94122012450 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 94122012451 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 94122012452 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 94122012453 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 94122012454 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 94122012455 C-terminal domain interface [polypeptide binding]; other site 94122012456 GSH binding site (G-site) [chemical binding]; other site 94122012457 dimer interface [polypeptide binding]; other site 94122012458 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 94122012459 N-terminal domain interface [polypeptide binding]; other site 94122012460 dimer interface [polypeptide binding]; other site 94122012461 substrate binding pocket (H-site) [chemical binding]; other site 94122012462 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 94122012463 active site 94122012464 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 94122012465 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 94122012466 active site 94122012467 Zn binding site [ion binding]; other site 94122012468 glutathione reductase; Validated; Region: PRK06116 94122012469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 94122012471 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 94122012472 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 94122012473 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 94122012474 Na binding site [ion binding]; other site 94122012475 gamma-glutamyl kinase; Provisional; Region: PRK13402 94122012476 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 94122012477 nucleotide binding site [chemical binding]; other site 94122012478 homotetrameric interface [polypeptide binding]; other site 94122012479 putative phosphate binding site [ion binding]; other site 94122012480 putative allosteric binding site; other site 94122012481 PUA domain; Region: PUA; cl00607 94122012482 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 94122012483 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 94122012484 putative catalytic cysteine [active] 94122012485 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 94122012486 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 94122012487 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 94122012488 non-specific DNA binding site [nucleotide binding]; other site 94122012489 salt bridge; other site 94122012490 sequence-specific DNA binding site [nucleotide binding]; other site 94122012491 Domain of unknown function (DUF955); Region: DUF955; cl01076 94122012492 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 94122012493 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 94122012494 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 94122012495 Helix-turn-helix domains; Region: HTH; cl00088 94122012496 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 94122012497 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 94122012498 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 94122012499 Nitrogen regulatory protein P-II; Region: P-II; cl00412 94122012500 Paraquat-inducible protein A; Region: PqiA; pfam04403 94122012501 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 94122012502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 94122012503 Zn2+ binding site [ion binding]; other site 94122012504 Mg2+ binding site [ion binding]; other site 94122012505 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 94122012506 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 94122012507 Walker A/P-loop; other site 94122012508 ATP binding site [chemical binding]; other site 94122012509 Q-loop/lid; other site 94122012510 ABC transporter signature motif; other site 94122012511 Walker B; other site 94122012512 D-loop; other site 94122012513 H-loop/switch region; other site 94122012514 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 94122012515 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 94122012516 Walker A/P-loop; other site 94122012517 ATP binding site [chemical binding]; other site 94122012518 Q-loop/lid; other site 94122012519 ABC transporter signature motif; other site 94122012520 Walker B; other site 94122012521 D-loop; other site 94122012522 H-loop/switch region; other site 94122012523 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 94122012524 chorismate binding enzyme; Region: Chorismate_bind; cl10555 94122012525 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 94122012526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 94122012527 Coenzyme A binding pocket [chemical binding]; other site 94122012528 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 94122012529 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 94122012530 dimer interface [polypeptide binding]; other site 94122012531 phosphorylation site [posttranslational modification] 94122012532 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 94122012533 ATP binding site [chemical binding]; other site 94122012534 G-X-G motif; other site 94122012535 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 94122012536 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 94122012537 active site 94122012538 phosphorylation site [posttranslational modification] 94122012539 intermolecular recognition site; other site 94122012540 dimerization interface [polypeptide binding]; other site 94122012541 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 94122012542 Walker A motif; other site 94122012543 ATP binding site [chemical binding]; other site 94122012544 Walker B motif; other site 94122012545 arginine finger; other site 94122012546 Helix-turn-helix domains; Region: HTH; cl00088 94122012547 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 94122012548 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 94122012549 dimerization interface [polypeptide binding]; other site 94122012550 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 94122012551 dimer interface [polypeptide binding]; other site 94122012552 conserved gate region; other site 94122012553 putative PBP binding loops; other site 94122012554 ABC-ATPase subunit interface; other site 94122012555 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 94122012556 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 94122012557 Walker A/P-loop; other site 94122012558 ATP binding site [chemical binding]; other site 94122012559 Q-loop/lid; other site 94122012560 ABC transporter signature motif; other site 94122012561 Walker B; other site 94122012562 D-loop; other site 94122012563 H-loop/switch region; other site 94122012564 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 94122012565 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 94122012566 GTP binding site; other site 94122012567 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 94122012568 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 94122012569 Walker A motif; other site 94122012570 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 94122012571 dimer interface [polypeptide binding]; other site 94122012572 putative functional site; other site 94122012573 putative MPT binding site; other site 94122012574 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 94122012575 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 94122012576 FeS/SAM binding site; other site 94122012577 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 94122012578 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 94122012579 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 94122012580 DNA binding site [nucleotide binding] 94122012581 catalytic residue [active] 94122012582 H2TH interface [polypeptide binding]; other site 94122012583 putative catalytic residues [active] 94122012584 turnover-facilitating residue; other site 94122012585 intercalation triad [nucleotide binding]; other site 94122012586 8OG recognition residue [nucleotide binding]; other site 94122012587 putative reading head residues; other site 94122012588 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 94122012589 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 94122012590 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 94122012591 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 94122012592 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 94122012593 Ligand binding site; other site 94122012594 Putative Catalytic site; other site 94122012595 DXD motif; other site 94122012596 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 94122012597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012598 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 94122012599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 94122012600 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 94122012601 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 94122012602 putative NAD(P) binding site [chemical binding]; other site 94122012603 active site 94122012604 putative substrate binding site [chemical binding]; other site 94122012605 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 94122012606 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 94122012607 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 94122012608 active site 94122012609 (T/H)XGH motif; other site 94122012610 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 94122012611 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 94122012612 putative ADP-binding pocket [chemical binding]; other site 94122012613 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 94122012614 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 94122012615 Ligand binding site; other site 94122012616 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 94122012617 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 94122012618 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 94122012619 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 94122012620 putative ADP-binding pocket [chemical binding]; other site 94122012621 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 94122012622 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 94122012623 putative active site [active] 94122012624 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 94122012625 ATP binding site [chemical binding]; other site 94122012626 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 94122012627 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 94122012628 Helix-turn-helix domains; Region: HTH; cl00088 94122012629 Bacterial transcriptional repressor; Region: TetR; pfam13972 94122012630 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 94122012631 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 94122012632 substrate-cofactor binding pocket; other site 94122012633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 94122012634 catalytic residue [active] 94122012635 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 94122012636 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 94122012637 NAD(P) binding site [chemical binding]; other site 94122012638 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 94122012639 active site residue [active] 94122012640 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 94122012641 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 94122012642 Rhomboid family; Region: Rhomboid; cl11446 94122012643 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 94122012644 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 94122012645 conserved cys residue [active] 94122012646 DNA polymerase I; Provisional; Region: PRK05755 94122012647 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 94122012648 active site 94122012649 metal binding site 1 [ion binding]; metal-binding site 94122012650 putative 5' ssDNA interaction site; other site 94122012651 metal binding site 3; metal-binding site 94122012652 metal binding site 2 [ion binding]; metal-binding site 94122012653 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 94122012654 putative DNA binding site [nucleotide binding]; other site 94122012655 putative metal binding site [ion binding]; other site 94122012656 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 94122012657 active site 94122012658 catalytic site [active] 94122012659 substrate binding site [chemical binding]; other site 94122012660 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 94122012661 active site 94122012662 DNA binding site [nucleotide binding] 94122012663 catalytic site [active] 94122012664 Predicted GTPase [General function prediction only]; Region: COG0218 94122012665 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 94122012666 G1 box; other site 94122012667 GTP/Mg2+ binding site [chemical binding]; other site 94122012668 Switch I region; other site 94122012669 G2 box; other site 94122012670 G3 box; other site 94122012671 Switch II region; other site 94122012672 G4 box; other site 94122012673 G5 box; other site 94122012674 Cytochrome c; Region: Cytochrom_C; cl11414 94122012675 Cytochrome c; Region: Cytochrom_C; cl11414 94122012676 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 94122012677 Der GTPase activator (YihI); Region: YihI; cl01172 94122012678 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 94122012679 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 94122012680 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 94122012681 FeS/SAM binding site; other site 94122012682 HemN C-terminal domain; Region: HemN_C; pfam06969 94122012683 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 94122012684 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 94122012685 active site 94122012686 purine riboside binding site [chemical binding]; other site 94122012687 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 94122012688 lysophospholipase L2; Provisional; Region: PRK10749 94122012689 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 94122012690 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 94122012691 PAS fold; Region: PAS_3; pfam08447 94122012692 putative active site [active] 94122012693 heme pocket [chemical binding]; other site 94122012694 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 94122012695 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 94122012696 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 94122012697 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 94122012698 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 94122012699 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 94122012700 substrate binding site [chemical binding]; other site 94122012701 oxyanion hole (OAH) forming residues; other site 94122012702 trimer interface [polypeptide binding]; other site 94122012703 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 94122012704 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 94122012705 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 94122012706 glutaminase active site [active] 94122012707 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 94122012708 dimer interface [polypeptide binding]; other site 94122012709 active site 94122012710 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 94122012711 dimer interface [polypeptide binding]; other site 94122012712 active site 94122012713 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 94122012714 Helix-turn-helix domains; Region: HTH; cl00088 94122012715 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 94122012716 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 94122012717 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 94122012718 N-terminal plug; other site 94122012719 ligand-binding site [chemical binding]; other site 94122012720 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 94122012721 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 94122012722 Substrate binding site; other site 94122012723 Mg++ binding site; other site 94122012724 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 94122012725 active site 94122012726 substrate binding site [chemical binding]; other site 94122012727 CoA binding site [chemical binding]; other site 94122012728 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 94122012729 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 94122012730 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 94122012731 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 94122012732 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 94122012733 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 94122012734 alpha subunit interaction interface [polypeptide binding]; other site 94122012735 Walker A motif; other site 94122012736 ATP binding site [chemical binding]; other site 94122012737 Walker B motif; other site 94122012738 inhibitor binding site; inhibition site 94122012739 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 94122012740 ATP synthase; Region: ATP-synt; cl00365 94122012741 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 94122012742 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 94122012743 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 94122012744 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 94122012745 beta subunit interaction interface [polypeptide binding]; other site 94122012746 Walker A motif; other site 94122012747 ATP binding site [chemical binding]; other site 94122012748 Walker B motif; other site 94122012749 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 94122012750 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 94122012751 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 94122012752 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 94122012753 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 94122012754 ATP synthase subunit C; Region: ATP-synt_C; cl00466 94122012755 ATP synthase A chain; Region: ATP-synt_A; cl00413 94122012756 ATP synthase I chain; Region: ATP_synt_I; cl09170 94122012757 ParB-like partition proteins; Region: parB_part; TIGR00180 94122012758 ParB-like nuclease domain; Region: ParBc; cl02129 94122012759 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 94122012760 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 94122012761 P-loop; other site 94122012762 Magnesium ion binding site [ion binding]; other site 94122012763 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 94122012764 Magnesium ion binding site [ion binding]; other site