-- dump date 20120504_144921 -- class Genbank::misc_feature -- table misc_feature_note -- id note 656024000001 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 656024000002 G-X-X-G motif; other site 656024000003 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 656024000004 RxxxH motif; other site 656024000005 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 656024000006 Haemolytic domain; Region: Haemolytic; cl00506 656024000007 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 656024000008 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 656024000009 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 656024000010 Walker A motif; other site 656024000011 ATP binding site [chemical binding]; other site 656024000012 Walker B motif; other site 656024000013 arginine finger; other site 656024000014 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 656024000015 DnaA box-binding interface [nucleotide binding]; other site 656024000016 DNA polymerase III subunit beta; Validated; Region: PRK07761 656024000017 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 656024000018 putative DNA binding surface [nucleotide binding]; other site 656024000019 dimer interface [polypeptide binding]; other site 656024000020 beta-clamp/clamp loader binding surface; other site 656024000021 beta-clamp/translesion DNA polymerase binding surface; other site 656024000022 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 656024000023 Walker A/P-loop; other site 656024000024 ATP binding site [chemical binding]; other site 656024000025 Q-loop/lid; other site 656024000026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000027 ABC transporter signature motif; other site 656024000028 Walker B; other site 656024000029 D-loop; other site 656024000030 Protein of unknown function (DUF721); Region: DUF721; cl02324 656024000031 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 656024000032 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 656024000033 Mg2+ binding site [ion binding]; other site 656024000034 G-X-G motif; other site 656024000035 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 656024000036 anchoring element; other site 656024000037 dimer interface [polypeptide binding]; other site 656024000038 ATP binding site [chemical binding]; other site 656024000039 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 656024000040 active site 656024000041 putative metal-binding site [ion binding]; other site 656024000042 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 656024000043 DNA gyrase subunit A; Validated; Region: PRK05560 656024000044 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 656024000045 CAP-like domain; other site 656024000046 active site 656024000047 primary dimer interface [polypeptide binding]; other site 656024000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 656024000054 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 656024000055 Helix-turn-helix domains; Region: HTH; cl00088 656024000056 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 656024000057 [2Fe-2S] cluster binding site [ion binding]; other site 656024000058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000059 hypothetical protein; Provisional; Region: PRK05865 656024000060 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 656024000061 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 656024000062 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024000063 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 656024000064 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 656024000065 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 656024000066 Cation efflux family; Region: Cation_efflux; cl00316 656024000067 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 656024000068 nudix motif; other site 656024000069 TIR domain; Region: TIR_2; cl15770 656024000070 Tetratricopeptide repeat; Region: TPR_10; pfam13374 656024000071 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024000072 Tetratricopeptide repeat; Region: TPR_10; pfam13374 656024000073 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 656024000074 Transposase; Region: DDE_Tnp_ISL3; pfam01610 656024000075 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 656024000076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000077 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 656024000078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024000079 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 656024000080 Helix-turn-helix domains; Region: HTH; cl00088 656024000081 WHG domain; Region: WHG; pfam13305 656024000082 Domain of unknown function (DUF385); Region: DUF385; cl04387 656024000083 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 656024000084 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 656024000085 substrate binding site [chemical binding]; other site 656024000086 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 656024000087 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 656024000088 active site 656024000089 substrate binding site [chemical binding]; other site 656024000090 cosubstrate binding site; other site 656024000091 catalytic site [active] 656024000092 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 656024000093 active site 656024000094 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 656024000095 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 656024000096 Walker A/P-loop; other site 656024000097 ATP binding site [chemical binding]; other site 656024000098 Q-loop/lid; other site 656024000099 ABC transporter signature motif; other site 656024000100 Walker B; other site 656024000101 D-loop; other site 656024000102 H-loop/switch region; other site 656024000103 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 656024000104 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 656024000105 ABC-ATPase subunit interface; other site 656024000106 dimer interface [polypeptide binding]; other site 656024000107 putative PBP binding regions; other site 656024000108 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 656024000109 ABC-ATPase subunit interface; other site 656024000110 dimer interface [polypeptide binding]; other site 656024000111 putative PBP binding regions; other site 656024000112 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 656024000113 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 656024000114 siderophore binding site; other site 656024000115 MbtH-like protein; Region: MbtH; cl01279 656024000116 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024000117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000118 Walker A/P-loop; other site 656024000119 ATP binding site [chemical binding]; other site 656024000120 Q-loop/lid; other site 656024000121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000122 ABC transporter signature motif; other site 656024000123 Walker B; other site 656024000124 D-loop; other site 656024000125 H-loop/switch region; other site 656024000126 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 656024000127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000128 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 656024000129 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 656024000130 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 656024000131 Int/Topo IB signature motif; other site 656024000132 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024000133 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 656024000134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024000135 DNA-binding site [nucleotide binding]; DNA binding site 656024000136 UTRA domain; Region: UTRA; cl01230 656024000137 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 656024000138 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 656024000139 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 656024000140 DXD motif; other site 656024000141 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_2; cd06216 656024000142 FAD binding pocket [chemical binding]; other site 656024000143 FAD binding motif [chemical binding]; other site 656024000144 phosphate binding motif [ion binding]; other site 656024000145 beta-alpha-beta structure motif; other site 656024000146 NAD binding pocket [chemical binding]; other site 656024000147 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 656024000148 catalytic loop [active] 656024000149 iron binding site [ion binding]; other site 656024000150 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 656024000151 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 656024000152 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 656024000153 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024000154 Helix-turn-helix domains; Region: HTH; cl00088 656024000155 putative transposase OrfB; Reviewed; Region: PHA02517 656024000156 HTH-like domain; Region: HTH_21; pfam13276 656024000157 Integrase core domain; Region: rve; cl01316 656024000158 Integrase core domain; Region: rve_3; cl15866 656024000159 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 656024000160 non-specific DNA binding site [nucleotide binding]; other site 656024000161 salt bridge; other site 656024000162 sequence-specific DNA binding site [nucleotide binding]; other site 656024000163 S-adenosyl methyltransferase; Region: Methyltransf_19; pfam04672 656024000164 Leucine carboxyl methyltransferase; Region: LCM; cl01306 656024000165 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 656024000166 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 656024000167 Walker A/P-loop; other site 656024000168 ATP binding site [chemical binding]; other site 656024000169 Q-loop/lid; other site 656024000170 ABC transporter signature motif; other site 656024000171 Walker B; other site 656024000172 D-loop; other site 656024000173 H-loop/switch region; other site 656024000174 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 656024000175 dimer interface [polypeptide binding]; other site 656024000176 conserved gate region; other site 656024000177 putative PBP binding loops; other site 656024000178 ABC-ATPase subunit interface; other site 656024000179 Helix-turn-helix domains; Region: HTH; cl00088 656024000180 putative transposase OrfB; Reviewed; Region: PHA02517 656024000181 HTH-like domain; Region: HTH_21; pfam13276 656024000182 Integrase core domain; Region: rve; cl01316 656024000183 Integrase core domain; Region: rve_3; cl15866 656024000184 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000185 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 656024000186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000187 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 656024000188 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024000189 Integrase core domain; Region: rve; cl01316 656024000190 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 656024000191 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 656024000192 substrate binding site [chemical binding]; other site 656024000193 dimer interface [polypeptide binding]; other site 656024000194 ATP binding site [chemical binding]; other site 656024000195 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 656024000196 non-specific DNA binding site [nucleotide binding]; other site 656024000197 salt bridge; other site 656024000198 sequence-specific DNA binding site [nucleotide binding]; other site 656024000199 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 656024000200 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 656024000201 active site 656024000202 catalytic residues [active] 656024000203 metal binding site [ion binding]; metal-binding site 656024000204 Frankia paralogous domain; Region: Frankia_40_dom; TIGR03917 656024000205 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 656024000206 Helix-turn-helix domains; Region: HTH; cl00088 656024000207 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000208 Helix-turn-helix domains; Region: HTH; cl00088 656024000209 Integrase core domain; Region: rve; cl01316 656024000210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000211 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 656024000212 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000213 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024000214 active site 656024000215 ATP binding site [chemical binding]; other site 656024000216 substrate binding site [chemical binding]; other site 656024000217 activation loop (A-loop); other site 656024000218 Bacterial transcriptional activator domain; Region: BTAD; smart01043 656024000219 ImpE protein; Region: ImpE; pfam07024 656024000220 Proteins of 100 residues with WXG; Region: WXG100; cl02005 656024000221 amino acid transporter; Region: 2A0306; TIGR00909 656024000222 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 656024000223 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 656024000224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000225 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 656024000226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000227 PII uridylyl-transferase; Provisional; Region: PRK03381 656024000228 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 656024000229 metal binding triad; other site 656024000230 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 656024000231 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 656024000232 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 656024000233 Nitrogen regulatory protein P-II; Region: P-II; cl00412 656024000234 Nitrogen regulatory protein P-II; Region: P-II; smart00938 656024000235 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 656024000236 NlpC/P60 family; Region: NLPC_P60; cl11438 656024000237 Helix-turn-helix domains; Region: HTH; cl00088 656024000238 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 656024000239 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 656024000240 Helix-turn-helix domains; Region: HTH; cl00088 656024000241 putative transposase OrfB; Reviewed; Region: PHA02517 656024000242 HTH-like domain; Region: HTH_21; pfam13276 656024000243 Integrase core domain; Region: rve; cl01316 656024000244 Integrase core domain; Region: rve_3; cl15866 656024000245 Isochorismatase family; Region: Isochorismatase; pfam00857 656024000246 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 656024000247 catalytic triad [active] 656024000248 conserved cis-peptide bond; other site 656024000249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024000250 DNA-binding site [nucleotide binding]; DNA binding site 656024000251 Tat binding protein 1(TBP-1)-interacting protein (TBPIP); Region: TBPIP; pfam07106 656024000252 Integrase core domain; Region: rve_3; cl15866 656024000253 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024000254 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024000255 putative active site [active] 656024000256 putative NTP binding site [chemical binding]; other site 656024000257 putative nucleic acid binding site [nucleotide binding]; other site 656024000258 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 656024000259 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024000260 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024000261 putative active site [active] 656024000262 putative NTP binding site [chemical binding]; other site 656024000263 putative nucleic acid binding site [nucleotide binding]; other site 656024000264 Type II intron maturase; Region: Intron_maturas2; pfam01348 656024000265 Helix-turn-helix domains; Region: HTH; cl00088 656024000266 HTH-like domain; Region: HTH_21; pfam13276 656024000267 Integrase core domain; Region: rve; cl01316 656024000268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000269 Helix-turn-helix domains; Region: HTH; cl00088 656024000270 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000271 Helix-turn-helix domains; Region: HTH; cl00088 656024000272 Integrase core domain; Region: rve; cl01316 656024000273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000274 chaperone protein DnaJ; Provisional; Region: PRK14277 656024000275 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024000276 nudix motif; other site 656024000277 nuclear protein UL24; Provisional; Region: PHA03215 656024000278 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 656024000279 dimer interface [polypeptide binding]; other site 656024000280 ssDNA binding site [nucleotide binding]; other site 656024000281 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024000282 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 656024000283 nucleotide binding site [chemical binding]; other site 656024000284 polymerase nucleotide-binding site; other site 656024000285 primase nucleotide-binding site [nucleotide binding]; other site 656024000286 DNA-binding residues [nucleotide binding]; DNA binding site 656024000287 Transposase, Mutator family; Region: Transposase_mut; pfam00872 656024000288 MULE transposase domain; Region: MULE; pfam10551 656024000289 Helix-turn-helix domains; Region: HTH; cl00088 656024000290 putative transposase OrfB; Reviewed; Region: PHA02517 656024000291 HTH-like domain; Region: HTH_21; pfam13276 656024000292 Integrase core domain; Region: rve; cl01316 656024000293 Integrase core domain; Region: rve_3; cl15866 656024000294 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 656024000295 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 656024000296 NAD binding site [chemical binding]; other site 656024000297 catalytic Zn binding site [ion binding]; other site 656024000298 substrate binding site [chemical binding]; other site 656024000299 structural Zn binding site [ion binding]; other site 656024000300 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024000301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024000302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024000303 active site 656024000304 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 656024000305 DNA binding residues [nucleotide binding] 656024000306 dimerization interface [polypeptide binding]; other site 656024000307 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024000308 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024000309 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 656024000310 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 656024000311 non-specific DNA binding site [nucleotide binding]; other site 656024000312 salt bridge; other site 656024000313 sequence-specific DNA binding site [nucleotide binding]; other site 656024000314 Helix-turn-helix domains; Region: HTH; cl00088 656024000315 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000316 Helix-turn-helix domains; Region: HTH; cl00088 656024000317 Integrase core domain; Region: rve; cl01316 656024000318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000319 TIR domain; Region: TIR_2; cl15770 656024000320 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 656024000321 Protein of unknown function DUF111; Region: DUF111; cl03398 656024000322 Protein of unknown function DUF111; Region: DUF111; cl03398 656024000323 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 656024000324 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 656024000325 SEC-C motif; Region: SEC-C; pfam02810 656024000326 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 656024000327 putative active site [active] 656024000328 catalytic triad [active] 656024000329 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024000330 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 656024000331 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 656024000332 dimerization interface [polypeptide binding]; other site 656024000333 ATP binding site [chemical binding]; other site 656024000334 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 656024000335 dimerization interface [polypeptide binding]; other site 656024000336 ATP binding site [chemical binding]; other site 656024000337 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 656024000338 H+ Antiporter protein; Region: 2A0121; TIGR00900 656024000339 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 656024000340 NMT1-like family; Region: NMT1_2; cl15260 656024000341 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 656024000342 DNA-binding site [nucleotide binding]; DNA binding site 656024000343 RNA-binding motif; other site 656024000344 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 656024000345 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 656024000346 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 656024000347 Ligand Binding Site [chemical binding]; other site 656024000348 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 656024000349 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 656024000350 active site residue [active] 656024000351 Protein of unknown function DUF262; Region: DUF262; cl14890 656024000352 PAS domain S-box; Region: sensory_box; TIGR00229 656024000353 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 656024000354 putative active site [active] 656024000355 heme pocket [chemical binding]; other site 656024000356 PAS fold; Region: PAS_4; pfam08448 656024000357 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024000358 metal binding site [ion binding]; metal-binding site 656024000359 active site 656024000360 I-site; other site 656024000361 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 656024000362 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 656024000363 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 656024000364 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 656024000365 active site 656024000366 HIGH motif; other site 656024000367 KMSK motif region; other site 656024000368 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 656024000369 tRNA binding surface [nucleotide binding]; other site 656024000370 anticodon binding site; other site 656024000371 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 656024000372 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 656024000373 putative di-iron ligands [ion binding]; other site 656024000374 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 656024000375 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024000376 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 656024000377 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 656024000378 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024000379 phosphopeptide binding site; other site 656024000380 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024000381 phosphopeptide binding site; other site 656024000382 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; cd00143 656024000383 Protein phosphatase 2C; Region: PP2C; pfam00481 656024000384 active site 656024000385 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 656024000386 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 656024000387 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024000388 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000389 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024000390 active site 656024000391 ATP binding site [chemical binding]; other site 656024000392 substrate binding site [chemical binding]; other site 656024000393 activation loop (A-loop); other site 656024000394 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024000395 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000396 active site 656024000397 ATP binding site [chemical binding]; other site 656024000398 substrate binding site [chemical binding]; other site 656024000399 activation loop (A-loop); other site 656024000400 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024000401 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024000402 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024000403 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 656024000404 Glutamine amidotransferase class-I; Region: GATase; pfam00117 656024000405 glutamine binding [chemical binding]; other site 656024000406 catalytic triad [active] 656024000407 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 656024000408 AMP-binding enzyme; Region: AMP-binding; cl15778 656024000409 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024000410 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 656024000411 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 656024000412 Rhomboid family; Region: Rhomboid; cl11446 656024000413 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 656024000414 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; cd00317 656024000415 active site 656024000416 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 656024000417 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 656024000418 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 656024000419 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 656024000420 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 656024000421 DNA binding site [nucleotide binding] 656024000422 active site 656024000423 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024000424 Phosphotransferase enzyme family; Region: APH; pfam01636 656024000425 active site 656024000426 ATP binding site [chemical binding]; other site 656024000427 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024000428 hypothetical protein; Validated; Region: PRK09169 656024000429 Creatinine amidohydrolase; Region: Creatininase; cl00618 656024000430 PQ loop repeat; Region: PQ-loop; cl12056 656024000431 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 656024000432 Domain of unknown function (DUF397); Region: DUF397; pfam04149 656024000433 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 656024000434 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024000435 nudix motif; other site 656024000436 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 656024000437 Helix-turn-helix domains; Region: HTH; cl00088 656024000438 putative transposase OrfB; Reviewed; Region: PHA02517 656024000439 HTH-like domain; Region: HTH_21; pfam13276 656024000440 Integrase core domain; Region: rve; cl01316 656024000441 Integrase core domain; Region: rve_3; cl15866 656024000442 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 656024000443 Periplasmic binding protein TroA_e. 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_e; cd01142 656024000444 putative ligand binding residues [chemical binding]; other site 656024000445 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 656024000446 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 656024000447 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 656024000448 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 656024000449 putative hydrophobic ligand binding site [chemical binding]; other site 656024000450 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 656024000451 dimerization interface [polypeptide binding]; other site 656024000452 putative DNA binding site [nucleotide binding]; other site 656024000453 putative Zn2+ binding site [ion binding]; other site 656024000454 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 656024000455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000456 Right handed beta helix region; Region: Beta_helix; pfam13229 656024000457 stage V sporulation protein K; Region: spore_V_K; TIGR02881 656024000458 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 656024000459 Walker A motif; other site 656024000460 ATP binding site [chemical binding]; other site 656024000461 Walker B motif; other site 656024000462 arginine finger; other site 656024000463 Proteins of 100 residues with WXG; Region: WXG100; cl02005 656024000464 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000465 Integrase core domain; Region: rve; cl01316 656024000466 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 656024000467 Phosphotransferase enzyme family; Region: APH; pfam01636 656024000468 PQQ-like domain; Region: PQQ_2; pfam13360 656024000469 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024000470 Integrase core domain; Region: rve; cl01316 656024000471 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 656024000472 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 656024000473 putative active site [active] 656024000474 ChaB; Region: ChaB; cl01887 656024000475 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 656024000476 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 656024000477 AIR carboxylase; Region: AIRC; cl00310 656024000478 prephenate dehydratase; Provisional; Region: PRK11898 656024000479 Prephenate dehydratase; Region: PDT; pfam00800 656024000480 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 656024000481 putative L-Phe binding site [chemical binding]; other site 656024000482 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024000483 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024000484 Integrase core domain; Region: rve; cl01316 656024000485 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 656024000486 substrate binding pocket [chemical binding]; other site 656024000487 inhibitor binding site; inhibition site 656024000488 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 656024000489 homooctamer interface [polypeptide binding]; other site 656024000490 active site 656024000491 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 656024000492 catalytic center binding site [active] 656024000493 ATP binding site [chemical binding]; other site 656024000494 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 656024000495 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 656024000496 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 656024000497 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 656024000498 Fe-S cluster binding site [ion binding]; other site 656024000499 active site 656024000500 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 656024000501 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 656024000502 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024000503 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 656024000504 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 656024000505 Citrate synthase; Region: Citrate_synt; pfam00285 656024000506 oxalacetate binding site [chemical binding]; other site 656024000507 citrylCoA binding site [chemical binding]; other site 656024000508 coenzyme A binding site [chemical binding]; other site 656024000509 catalytic triad [active] 656024000510 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 656024000511 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 656024000512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024000513 catalytic residue [active] 656024000514 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 656024000515 Citrate synthase; Region: Citrate_synt; pfam00285 656024000516 oxalacetate binding site [chemical binding]; other site 656024000517 citrylCoA binding site [chemical binding]; other site 656024000518 coenzyme A binding site [chemical binding]; other site 656024000519 catalytic triad [active] 656024000520 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024000521 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 656024000522 active site 656024000523 catalytic tetrad [active] 656024000524 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 656024000525 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 656024000526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 656024000527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000528 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024000529 Helix-turn-helix domains; Region: HTH; cl00088 656024000530 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 656024000531 DNA binding site [nucleotide binding] 656024000532 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 656024000533 active site 656024000534 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 656024000535 dimer interface [polypeptide binding]; other site 656024000536 non-prolyl cis peptide bond; other site 656024000537 insertion regions; other site 656024000538 Cupin domain; Region: Cupin_2; cl09118 656024000539 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 656024000540 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 656024000541 Walker A/P-loop; other site 656024000542 ATP binding site [chemical binding]; other site 656024000543 Q-loop/lid; other site 656024000544 ABC transporter signature motif; other site 656024000545 Walker B; other site 656024000546 D-loop; other site 656024000547 H-loop/switch region; other site 656024000548 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 656024000549 dimer interface [polypeptide binding]; other site 656024000550 conserved gate region; other site 656024000551 putative PBP binding loops; other site 656024000552 ABC-ATPase subunit interface; other site 656024000553 NMT1-like family; Region: NMT1_2; cl15260 656024000554 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 656024000555 Flavin Reductases; Region: FlaRed; cl00801 656024000556 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 656024000557 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024000558 HSP90 family protein; Provisional; Region: PRK14083 656024000559 amidophosphoribosyltransferase; Provisional; Region: PRK07847 656024000560 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 656024000561 active site 656024000562 tetramer interface [polypeptide binding]; other site 656024000563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024000564 active site 656024000565 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 656024000566 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 656024000567 dimerization interface [polypeptide binding]; other site 656024000568 putative ATP binding site [chemical binding]; other site 656024000569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024000570 metal binding site [ion binding]; metal-binding site 656024000571 active site 656024000572 I-site; other site 656024000573 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 656024000574 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 656024000575 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 656024000576 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 656024000577 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 656024000578 NAD binding site [chemical binding]; other site 656024000579 Phe binding site; other site 656024000580 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 656024000581 DNA binding residues [nucleotide binding] 656024000582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000583 Predicted dehydrogenase [General function prediction only]; Region: COG0579 656024000584 Helix-turn-helix domains; Region: HTH; cl00088 656024000585 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000586 Helix-turn-helix domains; Region: HTH; cl00088 656024000587 Integrase core domain; Region: rve; cl01316 656024000588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000589 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024000590 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 656024000591 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024000592 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024000593 oligomeric interface; other site 656024000594 putative active site [active] 656024000595 homodimer interface [polypeptide binding]; other site 656024000596 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 656024000597 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024000598 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 656024000599 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024000600 Helix-turn-helix domains; Region: HTH; cl00088 656024000601 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 656024000602 RNA binding surface [nucleotide binding]; other site 656024000603 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; cd00321 656024000604 Moco binding site; other site 656024000605 metal coordination site [ion binding]; other site 656024000606 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 656024000607 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 656024000608 Ligand binding site; other site 656024000609 Putative Catalytic site; other site 656024000610 DXD motif; other site 656024000611 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024000612 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 656024000613 active site 656024000614 phosphorylation site [posttranslational modification] 656024000615 intermolecular recognition site; other site 656024000616 dimerization interface [polypeptide binding]; other site 656024000617 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 656024000618 DNA binding site [nucleotide binding] 656024000619 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 656024000620 phosphorylation site [posttranslational modification] 656024000621 dimer interface [polypeptide binding]; other site 656024000622 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 656024000623 ATP binding site [chemical binding]; other site 656024000624 Mg2+ binding site [ion binding]; other site 656024000625 G-X-G motif; other site 656024000626 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024000627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000628 NAD(P) binding site [chemical binding]; other site 656024000629 active site 656024000630 probable F420-dependent oxidoreductase, MSMEG_3544 family; Region: F420_MSMEG_3544; TIGR03854 656024000631 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024000632 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024000633 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 656024000634 Subunit I/III interface [polypeptide binding]; other site 656024000635 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 656024000636 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 656024000637 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 656024000638 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 656024000639 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 656024000640 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 656024000641 Carboxylesterase family; Region: COesterase; pfam00135 656024000642 substrate binding pocket [chemical binding]; other site 656024000643 catalytic triad [active] 656024000644 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024000645 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024000646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000647 Walker A/P-loop; other site 656024000648 ATP binding site [chemical binding]; other site 656024000649 Q-loop/lid; other site 656024000650 ABC transporter signature motif; other site 656024000651 Walker B; other site 656024000652 D-loop; other site 656024000653 H-loop/switch region; other site 656024000654 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 656024000655 Int/Topo IB signature motif; other site 656024000656 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024000657 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 656024000658 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 656024000659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024000660 DNA-binding site [nucleotide binding]; DNA binding site 656024000661 UTRA domain; Region: UTRA; cl01230 656024000662 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 656024000663 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000664 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000665 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000666 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000667 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000668 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000669 putative transposase OrfB; Reviewed; Region: PHA02517 656024000670 HTH-like domain; Region: HTH_21; pfam13276 656024000671 Integrase core domain; Region: rve; cl01316 656024000672 Integrase core domain; Region: rve_3; cl15866 656024000673 Helix-turn-helix domains; Region: HTH; cl00088 656024000674 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024000675 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 656024000676 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 656024000677 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 656024000678 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 656024000679 NADH(P)-binding; Region: NAD_binding_10; pfam13460 656024000680 NAD binding site [chemical binding]; other site 656024000681 substrate binding site [chemical binding]; other site 656024000682 putative active site [active] 656024000683 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 656024000684 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 656024000685 conserved cys residue [active] 656024000686 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024000687 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 656024000688 NAD(P) binding site [chemical binding]; other site 656024000689 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024000690 AAA domain; Region: AAA_33; pfam13671 656024000691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000692 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000693 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024000694 active site 656024000695 ATP binding site [chemical binding]; other site 656024000696 substrate binding site [chemical binding]; other site 656024000697 activation loop (A-loop); other site 656024000698 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 656024000699 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024000700 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024000701 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 656024000702 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024000703 putative metal binding site [ion binding]; other site 656024000704 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 656024000705 catalytic site [active] 656024000706 active site 656024000707 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 656024000708 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 656024000709 PHB binding site; other site 656024000710 subunit interaction site [polypeptide binding]; other site 656024000711 CoenzymeA binding site [chemical binding]; other site 656024000712 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 656024000713 CoenzymeA binding site [chemical binding]; other site 656024000714 subunit interaction site [polypeptide binding]; other site 656024000715 PHB binding site; other site 656024000716 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 656024000717 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 656024000718 substrate binding site [chemical binding]; other site 656024000719 oxyanion hole (OAH) forming residues; other site 656024000720 trimer interface [polypeptide binding]; other site 656024000721 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024000722 Helix-turn-helix domains; Region: HTH; cl00088 656024000723 YDG/SRA domain; Region: YDG_SRA; cl02620 656024000724 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 656024000725 AMP-binding enzyme; Region: AMP-binding; cl15778 656024000726 AMP-binding enzyme; Region: AMP-binding; cl15778 656024000727 enoyl-CoA hydratase; Provisional; Region: PRK06688 656024000728 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 656024000729 substrate binding site [chemical binding]; other site 656024000730 oxyanion hole (OAH) forming residues; other site 656024000731 trimer interface [polypeptide binding]; other site 656024000732 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000733 Helix-turn-helix domains; Region: HTH; cl00088 656024000734 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000735 Helix-turn-helix domains; Region: HTH; cl00088 656024000736 Integrase core domain; Region: rve; cl01316 656024000737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000738 TIR domain; Region: TIR_2; cl15770 656024000739 TM2 domain; Region: TM2; cl00984 656024000740 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 656024000741 Protein of unknown function (DUF4243); Region: DUF4243; pfam14027 656024000742 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024000743 Helix-turn-helix domains; Region: HTH; cl00088 656024000744 enterobactin exporter EntS; Provisional; Region: PRK10489 656024000745 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 656024000746 putative substrate translocation pore; other site 656024000747 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 656024000748 hypothetical protein; Provisional; Region: PRK11770 656024000749 Domain of unknown function (DUF307); Region: DUF307; pfam03733 656024000750 Epoxide hydrolase N terminus; Region: EHN; pfam06441 656024000751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024000752 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024000753 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 656024000754 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000755 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024000756 active site 656024000757 ATP binding site [chemical binding]; other site 656024000758 substrate binding site [chemical binding]; other site 656024000759 activation loop (A-loop); other site 656024000760 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cl03381 656024000761 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 656024000762 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 656024000763 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024000764 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 656024000765 dimer interface [polypeptide binding]; other site 656024000766 conserved gate region; other site 656024000767 putative PBP binding loops; other site 656024000768 ABC-ATPase subunit interface; other site 656024000769 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 656024000770 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 656024000771 Walker A/P-loop; other site 656024000772 ATP binding site [chemical binding]; other site 656024000773 Q-loop/lid; other site 656024000774 ABC transporter signature motif; other site 656024000775 Walker B; other site 656024000776 D-loop; other site 656024000777 H-loop/switch region; other site 656024000778 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024000779 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 656024000780 Walker A/P-loop; other site 656024000781 ATP binding site [chemical binding]; other site 656024000782 Q-loop/lid; other site 656024000783 ABC transporter signature motif; other site 656024000784 Walker B; other site 656024000785 D-loop; other site 656024000786 H-loop/switch region; other site 656024000787 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024000788 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024000789 active site 656024000790 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024000791 non-prolyl cis peptide bond; other site 656024000792 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 656024000793 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024000794 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024000795 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 656024000796 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 656024000797 Coenzyme A binding pocket [chemical binding]; other site 656024000798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024000799 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 656024000800 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 656024000801 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 656024000802 Helix-turn-helix domains; Region: HTH; cl00088 656024000803 putative transposase OrfB; Reviewed; Region: PHA02517 656024000804 HTH-like domain; Region: HTH_21; pfam13276 656024000805 Integrase core domain; Region: rve; cl01316 656024000806 Integrase core domain; Region: rve_3; cl15866 656024000807 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 656024000808 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024000809 active site 656024000810 metal binding site [ion binding]; metal-binding site 656024000811 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000812 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000813 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 656024000814 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000815 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000816 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000817 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000818 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000819 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024000820 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024000821 Frankia paralogous domain; Region: Frankia_40_dom; TIGR03917 656024000822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024000823 DNA-binding site [nucleotide binding]; DNA binding site 656024000824 FCD domain; Region: FCD; cl11656 656024000825 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024000826 Helix-turn-helix domains; Region: HTH; cl00088 656024000827 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 656024000828 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 656024000829 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 656024000830 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024000831 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 656024000832 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024000833 hypothetical protein; Provisional; Region: PRK07877 656024000834 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 656024000835 active site 656024000836 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024000837 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024000838 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 656024000839 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 656024000840 substrate-cofactor binding pocket; other site 656024000841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024000842 catalytic residue [active] 656024000843 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 656024000844 NifU-like domain; Region: NifU; cl00484 656024000845 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 656024000846 iron-sulfur cluster [ion binding]; other site 656024000847 [2Fe-2S] cluster binding site [ion binding]; other site 656024000848 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 656024000849 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 656024000850 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 656024000851 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 656024000852 DXD motif; other site 656024000853 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 656024000854 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 656024000855 Walker A/P-loop; other site 656024000856 ATP binding site [chemical binding]; other site 656024000857 Q-loop/lid; other site 656024000858 ABC transporter signature motif; other site 656024000859 Walker B; other site 656024000860 D-loop; other site 656024000861 H-loop/switch region; other site 656024000862 TOBE domain; Region: TOBE_2; cl01440 656024000863 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 656024000864 dimer interface [polypeptide binding]; other site 656024000865 conserved gate region; other site 656024000866 putative PBP binding loops; other site 656024000867 ABC-ATPase subunit interface; other site 656024000868 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 656024000869 dimer interface [polypeptide binding]; other site 656024000870 conserved gate region; other site 656024000871 ABC-ATPase subunit interface; other site 656024000872 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 656024000873 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 656024000874 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 656024000875 AMP-binding enzyme; Region: AMP-binding; cl15778 656024000876 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024000877 Acyltransferase family; Region: Acyl_transf_3; pfam01757 656024000878 MG2 domain; Region: A2M_N; pfam01835 656024000879 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 656024000880 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024000881 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024000882 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024000883 active site 656024000884 ATP binding site [chemical binding]; other site 656024000885 substrate binding site [chemical binding]; other site 656024000886 activation loop (A-loop); other site 656024000887 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 656024000888 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 656024000889 Cupin domain; Region: Cupin_2; cl09118 656024000890 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 656024000891 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024000892 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 656024000893 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 656024000894 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 656024000895 S-adenosylmethionine synthetase; Validated; Region: PRK05250 656024000896 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 656024000897 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 656024000898 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 656024000899 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024000900 TIGR03086 family protein; Region: TIGR03086 656024000901 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000902 Integrase core domain; Region: rve; cl01316 656024000903 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 656024000904 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 656024000905 putative active site [active] 656024000906 putative metal binding site [ion binding]; other site 656024000907 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 656024000908 Helix-turn-helix domains; Region: HTH; cl00088 656024000909 putative transposase OrfB; Reviewed; Region: PHA02517 656024000910 HTH-like domain; Region: HTH_21; pfam13276 656024000911 Integrase core domain; Region: rve; cl01316 656024000912 Integrase core domain; Region: rve_3; cl15866 656024000913 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 656024000914 pyranose oxidase; Region: pyranose_ox; TIGR02462 656024000915 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 656024000916 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 656024000917 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 656024000918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024000919 catalytic residue [active] 656024000920 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 656024000921 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 656024000922 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 656024000923 putative active site [active] 656024000924 catalytic triad [active] 656024000925 putative dimer interface [polypeptide binding]; other site 656024000926 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 656024000927 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 656024000928 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 656024000929 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 656024000930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000931 Family description; Region: UvrD_C_2; cl15862 656024000932 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024000933 putative active site [active] 656024000934 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024000935 phosphopeptide binding site; other site 656024000936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024000937 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 656024000938 Walker A/P-loop; other site 656024000939 ATP binding site [chemical binding]; other site 656024000940 Q-loop/lid; other site 656024000941 ABC transporter signature motif; other site 656024000942 Walker B; other site 656024000943 D-loop; other site 656024000944 H-loop/switch region; other site 656024000945 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024000946 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 656024000947 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 656024000948 P-loop; other site 656024000949 Magnesium ion binding site [ion binding]; other site 656024000950 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 656024000951 Magnesium ion binding site [ion binding]; other site 656024000952 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 656024000953 nudix motif; other site 656024000954 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024000955 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024000956 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 656024000957 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 656024000958 Helix-turn-helix domains; Region: HTH; cl00088 656024000959 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000960 Helix-turn-helix domains; Region: HTH; cl00088 656024000961 Integrase core domain; Region: rve; cl01316 656024000962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024000963 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 656024000964 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024000965 active site 656024000966 metal binding site [ion binding]; metal-binding site 656024000967 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 656024000968 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 656024000969 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024000970 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 656024000971 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 656024000972 ligand binding site; other site 656024000973 oligomer interface; other site 656024000974 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 656024000975 dimer interface [polypeptide binding]; other site 656024000976 N-terminal domain interface [polypeptide binding]; other site 656024000977 sulfate 1 binding site; other site 656024000978 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024000979 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 656024000980 S-adenosylmethionine binding site [chemical binding]; other site 656024000981 Winged helix-turn helix; Region: HTH_29; pfam13551 656024000982 Integrase core domain; Region: rve; cl01316 656024000983 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024000984 Integrase core domain; Region: rve; cl01316 656024000985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024000986 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 656024000987 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024000988 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 656024000989 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024000990 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 656024000991 active site 656024000992 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 656024000993 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024000994 dimer interface [polypeptide binding]; other site 656024000995 active site 656024000996 Cupin domain; Region: Cupin_2; cl09118 656024000997 N-terminal aromatase/cyclase domain of the multifunctional protein tetracenomycin (TcmN) and related domains; Region: TcmN_ARO-CYC_like; cd08860 656024000998 putative hydrophobic ligand binding site [chemical binding]; other site 656024000999 active site 656024001000 catalytic residues_2 [active] 656024001001 catalytic residues_1 [active] 656024001002 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024001003 Polyketide synthesis cyclase; Region: Cyclase_polyket; pfam04673 656024001004 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 656024001005 Helix-turn-helix domains; Region: HTH; cl00088 656024001006 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 656024001007 G2 box; other site 656024001008 Switch I region; other site 656024001009 G3 box; other site 656024001010 Switch II region; other site 656024001011 GTP/Mg2+ binding site [chemical binding]; other site 656024001012 G4 box; other site 656024001013 G5 box; other site 656024001014 Protein of unknown function (DUF742); Region: DUF742; pfam05331 656024001015 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 656024001016 Nitrate and nitrite sensing; Region: NIT; pfam08376 656024001017 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 656024001018 ATP binding site [chemical binding]; other site 656024001019 Mg2+ binding site [ion binding]; other site 656024001020 G-X-G motif; other site 656024001021 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024001022 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024001023 active site 656024001024 ATP binding site [chemical binding]; other site 656024001025 substrate binding site [chemical binding]; other site 656024001026 activation loop (A-loop); other site 656024001027 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024001028 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024001029 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024001030 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 656024001031 Walker A/P-loop; other site 656024001032 ATP binding site [chemical binding]; other site 656024001033 Q-loop/lid; other site 656024001034 ABC transporter signature motif; other site 656024001035 Walker B; other site 656024001036 D-loop; other site 656024001037 H-loop/switch region; other site 656024001038 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 656024001039 S-adenosylmethionine binding site [chemical binding]; other site 656024001040 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 656024001041 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 656024001042 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 656024001043 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 656024001044 FeS/SAM binding site; other site 656024001045 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 656024001046 Cupin domain; Region: Cupin_2; cl09118 656024001047 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; cl02712 656024001048 voltage-gated potassium channel; Provisional; Region: PRK10537 656024001049 RyR domain; Region: RyR; pfam02026 656024001050 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 656024001051 phosphate binding site [ion binding]; other site 656024001052 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024001053 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 656024001054 Domain of unknown function (DUF1918); Region: DUF1918; pfam08940 656024001055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024001056 active site 656024001057 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 656024001058 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 656024001059 Protein kinase domain; Region: Pkinase; pfam00069 656024001060 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024001061 active site 656024001062 ATP binding site [chemical binding]; other site 656024001063 substrate binding site [chemical binding]; other site 656024001064 activation loop (A-loop); other site 656024001065 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; cd00200 656024001066 structural tetrad; other site 656024001067 ANTAR domain; Region: ANTAR; cl04297 656024001068 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 656024001069 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 656024001070 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 656024001071 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 656024001072 dimerization interface [polypeptide binding]; other site 656024001073 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 656024001074 dimerization interface [polypeptide binding]; other site 656024001075 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 656024001076 dimerization interface [polypeptide binding]; other site 656024001077 GAF domain; Region: GAF_2; pfam13185 656024001078 GAF domain; Region: GAF; cl15785 656024001079 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 656024001080 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 656024001081 ATP binding site [chemical binding]; other site 656024001082 Mg2+ binding site [ion binding]; other site 656024001083 G-X-G motif; other site 656024001084 Response regulator receiver domain; Region: Response_reg; pfam00072 656024001085 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 656024001086 active site 656024001087 phosphorylation site [posttranslational modification] 656024001088 intermolecular recognition site; other site 656024001089 dimerization interface [polypeptide binding]; other site 656024001090 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 656024001091 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 656024001092 dimerization interface [polypeptide binding]; other site 656024001093 putative DNA binding site [nucleotide binding]; other site 656024001094 putative Zn2+ binding site [ion binding]; other site 656024001095 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 656024001096 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024001097 active site 656024001098 metal binding site [ion binding]; metal-binding site 656024001099 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 656024001100 amphipathic channel; other site 656024001101 Asn-Pro-Ala signature motifs; other site 656024001102 Low molecular weight phosphatase family; Region: LMWPc; cd00115 656024001103 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 656024001104 active site 656024001105 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 656024001106 DNA binding residues [nucleotide binding] 656024001107 dimerization interface [polypeptide binding]; other site 656024001108 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 656024001109 DNA binding residues [nucleotide binding] 656024001110 dimerization interface [polypeptide binding]; other site 656024001111 Helix-turn-helix domains; Region: HTH; cl00088 656024001112 putative transposase OrfB; Reviewed; Region: PHA02517 656024001113 HTH-like domain; Region: HTH_21; pfam13276 656024001114 Integrase core domain; Region: rve; cl01316 656024001115 Integrase core domain; Region: rve_3; cl15866 656024001116 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 656024001117 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 656024001118 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 656024001119 dimerization interface [polypeptide binding]; other site 656024001120 putative DNA binding site [nucleotide binding]; other site 656024001121 putative Zn2+ binding site [ion binding]; other site 656024001122 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024001123 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024001124 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 656024001125 Predicted esterase [General function prediction only]; Region: COG0627 656024001126 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 656024001127 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 656024001128 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 656024001129 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 656024001130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024001131 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 656024001132 Helix-turn-helix domains; Region: HTH; cl00088 656024001133 Winged helix-turn helix; Region: HTH_29; pfam13551 656024001134 Helix-turn-helix domains; Region: HTH; cl00088 656024001135 Integrase core domain; Region: rve; cl01316 656024001136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024001137 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024001138 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024001139 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 656024001140 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 656024001141 non-specific DNA binding site [nucleotide binding]; other site 656024001142 salt bridge; other site 656024001143 sequence-specific DNA binding site [nucleotide binding]; other site 656024001144 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024001145 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024001146 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 656024001147 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 656024001148 Divergent AAA domain; Region: AAA_4; pfam04326 656024001149 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 656024001150 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 656024001151 Peptidase family M48; Region: Peptidase_M48; cl12018 656024001152 Helix-turn-helix domains; Region: HTH; cl00088 656024001153 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 656024001154 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 656024001155 CAAX protease self-immunity; Region: Abi; cl00558 656024001156 Uncharacterized conserved protein [Function unknown]; Region: COG3025 656024001157 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 656024001158 putative active site; other site 656024001159 putative metal binding residues [ion binding]; other site 656024001160 signature motif; other site 656024001161 putative triphosphate binding site [ion binding]; other site 656024001162 CHAD domain; Region: CHAD; cl10506 656024001163 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 656024001164 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024001165 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 656024001166 active site 656024001167 phosphorylation site [posttranslational modification] 656024001168 intermolecular recognition site; other site 656024001169 dimerization interface [polypeptide binding]; other site 656024001170 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 656024001171 DNA binding site [nucleotide binding] 656024001172 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 656024001173 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 656024001174 dimer interface [polypeptide binding]; other site 656024001175 phosphorylation site [posttranslational modification] 656024001176 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 656024001177 ATP binding site [chemical binding]; other site 656024001178 Mg2+ binding site [ion binding]; other site 656024001179 G-X-G motif; other site 656024001180 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 656024001181 Sulfatase; Region: Sulfatase; cl10460 656024001182 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 656024001183 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 656024001184 active site 656024001185 catalytic tetrad [active] 656024001186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001187 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 656024001188 DNA-binding site [nucleotide binding]; DNA binding site 656024001189 RNA-binding motif; other site 656024001190 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 656024001191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001192 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 656024001193 aspartate kinase; Reviewed; Region: PRK06635 656024001194 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 656024001195 putative nucleotide binding site [chemical binding]; other site 656024001196 putative catalytic residues [active] 656024001197 putative Mg ion binding site [ion binding]; other site 656024001198 putative aspartate binding site [chemical binding]; other site 656024001199 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 656024001200 putative allosteric regulatory site; other site 656024001201 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 656024001202 putative allosteric regulatory residue; other site 656024001203 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024001204 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024001205 putative metal binding site [ion binding]; other site 656024001206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001207 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 656024001208 NAD(P) binding site [chemical binding]; other site 656024001209 Fic family protein [Function unknown]; Region: COG3177 656024001210 Fic/DOC family; Region: Fic; cl00960 656024001211 recombination protein RecR; Reviewed; Region: recR; PRK00076 656024001212 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 656024001213 RecR protein; Region: RecR; pfam02132 656024001214 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 656024001215 putative active site [active] 656024001216 putative metal-binding site [ion binding]; other site 656024001217 tetramer interface [polypeptide binding]; other site 656024001218 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 656024001219 TIR domain; Region: TIR_2; cl15770 656024001220 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024001221 Integrase core domain; Region: rve; cl01316 656024001222 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 656024001223 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024001224 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 656024001225 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 656024001226 Walker A motif; other site 656024001227 ATP binding site [chemical binding]; other site 656024001228 Walker B motif; other site 656024001229 arginine finger; other site 656024001230 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 656024001231 Archaeal ATPase; Region: Arch_ATPase; pfam01637 656024001232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024001233 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 656024001234 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 656024001235 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 656024001236 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 656024001237 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 656024001238 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024001239 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 656024001240 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 656024001241 active site 656024001242 intersubunit interface [polypeptide binding]; other site 656024001243 zinc binding site [ion binding]; other site 656024001244 Na+ binding site [ion binding]; other site 656024001245 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 656024001246 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024001247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001248 NAD(P) binding site [chemical binding]; other site 656024001249 active site 656024001250 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024001251 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 656024001252 active site 656024001253 NTP binding site [chemical binding]; other site 656024001254 metal binding triad [ion binding]; metal-binding site 656024001255 Transport protein; Region: actII; TIGR00833 656024001256 Transport protein; Region: actII; TIGR00833 656024001257 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 656024001258 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 656024001259 Clp amino terminal domain; Region: Clp_N; pfam02861 656024001260 Clp amino terminal domain; Region: Clp_N; pfam02861 656024001261 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 656024001262 Walker A motif; other site 656024001263 ATP binding site [chemical binding]; other site 656024001264 Walker B motif; other site 656024001265 arginine finger; other site 656024001266 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 656024001267 Walker A motif; other site 656024001268 ATP binding site [chemical binding]; other site 656024001269 Walker B motif; other site 656024001270 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 656024001271 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 656024001272 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 656024001273 DNA binding residues [nucleotide binding] 656024001274 putative dimer interface [polypeptide binding]; other site 656024001275 chaperone protein DnaJ; Provisional; Region: PRK14295 656024001276 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 656024001277 HSP70 interaction site [polypeptide binding]; other site 656024001278 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 656024001279 Zn binding sites [ion binding]; other site 656024001280 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 656024001281 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 656024001282 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 656024001283 dimer interface [polypeptide binding]; other site 656024001284 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 656024001285 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 656024001286 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 656024001287 ATP binding site [chemical binding]; other site 656024001288 profilin binding site; other site 656024001289 Restriction endonuclease; Region: Mrr_cat; cl00516 656024001290 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 656024001291 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 656024001292 4Fe-4S binding domain; Region: Fer4; cl02805 656024001293 Cysteine-rich domain; Region: CCG; pfam02754 656024001294 Cysteine-rich domain; Region: CCG; pfam02754 656024001295 Uncharacterized conserved protein [Function unknown]; Region: COG2898 656024001296 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 656024001297 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 656024001298 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024001299 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 656024001300 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 656024001301 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 656024001302 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 656024001303 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 656024001304 trimer interface [polypeptide binding]; other site 656024001305 active site 656024001306 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 656024001307 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024001308 oligomeric interface; other site 656024001309 putative active site [active] 656024001310 homodimer interface [polypeptide binding]; other site 656024001311 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 656024001312 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024001313 classical (c) SDRs; Region: SDR_c; cd05233 656024001314 NAD(P) binding site [chemical binding]; other site 656024001315 active site 656024001316 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 656024001317 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 656024001318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001319 homodimer interface [polypeptide binding]; other site 656024001320 catalytic residue [active] 656024001321 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024001322 Integrase core domain; Region: rve; cl01316 656024001323 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024001324 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 656024001325 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 656024001326 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 656024001327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001328 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 656024001329 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 656024001330 metal-binding site 656024001331 DivIVA domain; Region: DivI1A_domain; TIGR03544 656024001332 DivIVA domain; Region: DivI1A_domain; TIGR03544 656024001333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001334 O-methyltransferase; Region: Methyltransf_3; pfam01596 656024001335 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 656024001336 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 656024001337 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 656024001338 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 656024001339 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 656024001340 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 656024001341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001342 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 656024001343 Hyaluronan synthases catalyze polymerization of hyaluronan; Region: GT2_HAS; cd06434 656024001344 DXD motif; other site 656024001345 Right handed beta helix region; Region: Beta_helix; pfam13229 656024001346 Right handed beta helix region; Region: Beta_helix; pfam13229 656024001347 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 656024001348 Glucitol operon activator protein (GutM); Region: GutM; cl01890 656024001349 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 656024001350 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 656024001351 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 656024001352 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 656024001353 NAD(P) binding site [chemical binding]; other site 656024001354 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 656024001355 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 656024001356 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 656024001357 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 656024001358 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 656024001359 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 656024001360 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 656024001361 active site 656024001362 motif I; other site 656024001363 motif II; other site 656024001364 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 656024001365 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 656024001366 ATP phosphoribosyltransferase; Region: HisG; cl15266 656024001367 HisG, C-terminal domain; Region: HisG_C; cl06867 656024001368 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 656024001369 homodecamer interface [polypeptide binding]; other site 656024001370 GTP cyclohydrolase I; Provisional; Region: PLN03044 656024001371 active site 656024001372 putative catalytic site residues [active] 656024001373 zinc binding site [ion binding]; other site 656024001374 GTP-CH-I/GFRP interaction surface; other site 656024001375 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 656024001376 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 656024001377 Walker A motif; other site 656024001378 ATP binding site [chemical binding]; other site 656024001379 Walker B motif; other site 656024001380 arginine finger; other site 656024001381 Peptidase family M41; Region: Peptidase_M41; pfam01434 656024001382 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 656024001383 Ligand Binding Site [chemical binding]; other site 656024001384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024001385 active site 656024001386 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 656024001387 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024001388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024001389 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 656024001390 dimer interface [polypeptide binding]; other site 656024001391 substrate binding site [chemical binding]; other site 656024001392 metal binding sites [ion binding]; metal-binding site 656024001393 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024001394 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 656024001395 active site 656024001396 phosphorylation site [posttranslational modification] 656024001397 intermolecular recognition site; other site 656024001398 dimerization interface [polypeptide binding]; other site 656024001399 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 656024001400 DNA binding site [nucleotide binding] 656024001401 Helix-turn-helix domains; Region: HTH; cl00088 656024001402 Winged helix-turn helix; Region: HTH_29; pfam13551 656024001403 Helix-turn-helix domains; Region: HTH; cl00088 656024001404 Integrase core domain; Region: rve; cl01316 656024001405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024001406 PSP1 C-terminal conserved region; Region: PSP1; cl00770 656024001407 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024001408 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024001409 active site 656024001410 ATP binding site [chemical binding]; other site 656024001411 substrate binding site [chemical binding]; other site 656024001412 activation loop (A-loop); other site 656024001413 Helix-turn-helix domains; Region: HTH; cl00088 656024001414 NMT1-like family; Region: NMT1_2; cl15260 656024001415 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 656024001416 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 656024001417 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 656024001418 Walker A/P-loop; other site 656024001419 ATP binding site [chemical binding]; other site 656024001420 Q-loop/lid; other site 656024001421 ABC transporter signature motif; other site 656024001422 Walker B; other site 656024001423 D-loop; other site 656024001424 H-loop/switch region; other site 656024001425 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 656024001426 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 656024001427 dimer interface [polypeptide binding]; other site 656024001428 conserved gate region; other site 656024001429 putative PBP binding loops; other site 656024001430 ABC-ATPase subunit interface; other site 656024001431 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024001432 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024001433 active site 656024001434 non-prolyl cis peptide bond; other site 656024001435 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024001436 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024001437 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024001438 Predicted integral membrane protein [Function unknown]; Region: COG0392 656024001439 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 656024001440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024001441 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 656024001442 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 656024001443 active site 656024001444 catalytic site [active] 656024001445 glycine dehydrogenase; Provisional; Region: PRK05367 656024001446 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 656024001447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024001448 catalytic residue [active] 656024001449 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 656024001450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024001451 catalytic residue [active] 656024001452 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 656024001453 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 656024001454 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024001455 Helix-turn-helix domains; Region: HTH; cl00088 656024001456 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 656024001457 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024001458 Integrase core domain; Region: rve; cl01316 656024001459 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 656024001460 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 656024001461 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 656024001462 IucA / IucC family; Region: IucA_IucC; pfam04183 656024001463 IucA / IucC family; Region: IucA_IucC; pfam04183 656024001464 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 656024001465 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 656024001466 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 656024001467 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 656024001468 inhibitor-cofactor binding pocket; inhibition site 656024001469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001470 catalytic residue [active] 656024001471 cystathionine gamma-synthase; Provisional; Region: PRK07811 656024001472 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 656024001473 homodimer interface [polypeptide binding]; other site 656024001474 substrate-cofactor binding pocket; other site 656024001475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001476 catalytic residue [active] 656024001477 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 656024001478 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 656024001479 dimer interface [polypeptide binding]; other site 656024001480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001481 catalytic residue [active] 656024001482 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 656024001483 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 656024001484 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 656024001485 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 656024001486 catalytic residue [active] 656024001487 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 656024001488 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 656024001489 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 656024001490 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 656024001491 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 656024001492 dimerization interface [polypeptide binding]; other site 656024001493 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 656024001494 dimerization interface [polypeptide binding]; other site 656024001495 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 656024001496 dimerization interface [polypeptide binding]; other site 656024001497 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 656024001498 dimerization interface [polypeptide binding]; other site 656024001499 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 656024001500 dimerization interface [polypeptide binding]; other site 656024001501 GAF domain; Region: GAF_2; pfam13185 656024001502 GAF domain; Region: GAF; cl15785 656024001503 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 656024001504 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 656024001505 ATP binding site [chemical binding]; other site 656024001506 Mg2+ binding site [ion binding]; other site 656024001507 G-X-G motif; other site 656024001508 Response regulator receiver domain; Region: Response_reg; pfam00072 656024001509 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 656024001510 active site 656024001511 phosphorylation site [posttranslational modification] 656024001512 intermolecular recognition site; other site 656024001513 dimerization interface [polypeptide binding]; other site 656024001514 Response regulator receiver domain; Region: Response_reg; pfam00072 656024001515 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 656024001516 active site 656024001517 phosphorylation site [posttranslational modification] 656024001518 intermolecular recognition site; other site 656024001519 dimerization interface [polypeptide binding]; other site 656024001520 Domain of unknown function (DUF305); Region: DUF305; cl15795 656024001521 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 656024001522 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 656024001523 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 656024001524 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 656024001525 Ligand binding site; other site 656024001526 Putative Catalytic site; other site 656024001527 DXD motif; other site 656024001528 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024001529 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 656024001530 Predicted methyltransferases [General function prediction only]; Region: COG0313 656024001531 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; cl00630 656024001532 putative active site [active] 656024001533 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024001534 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 656024001535 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 656024001536 active site 656024001537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001538 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 656024001539 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 656024001540 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024001541 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 656024001542 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 656024001543 ABC transporter; Region: ABC_tran_2; pfam12848 656024001544 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024001545 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 656024001546 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 656024001547 Di-iron ligands [ion binding]; other site 656024001548 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 656024001549 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 656024001550 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 656024001551 Substrate binding site; other site 656024001552 Mg++ binding site; other site 656024001553 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 656024001554 active site 656024001555 substrate binding site [chemical binding]; other site 656024001556 CoA binding site [chemical binding]; other site 656024001557 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 656024001558 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 656024001559 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024001560 active site 656024001561 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 656024001562 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 656024001563 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 656024001564 5S rRNA interface [nucleotide binding]; other site 656024001565 CTC domain interface [polypeptide binding]; other site 656024001566 L16 interface [polypeptide binding]; other site 656024001567 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 656024001568 putative active site [active] 656024001569 catalytic residue [active] 656024001570 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 656024001571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001572 Methyltransferase domain; Region: Methyltransf_31; pfam13847 656024001573 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 656024001574 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 656024001575 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 656024001576 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 656024001577 ATP binding site [chemical binding]; other site 656024001578 putative Mg++ binding site [ion binding]; other site 656024001579 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 656024001580 nucleotide binding region [chemical binding]; other site 656024001581 ATP-binding site [chemical binding]; other site 656024001582 TRCF domain; Region: TRCF; cl04088 656024001583 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 656024001584 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 656024001585 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 656024001586 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 656024001587 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 656024001588 tandem repeat interface [polypeptide binding]; other site 656024001589 oligomer interface [polypeptide binding]; other site 656024001590 active site residues [active] 656024001591 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 656024001592 oligomer interface [polypeptide binding]; other site 656024001593 tandem repeat interface [polypeptide binding]; other site 656024001594 active site residues [active] 656024001595 enolase; Provisional; Region: eno; PRK00077 656024001596 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 656024001597 dimer interface [polypeptide binding]; other site 656024001598 metal binding site [ion binding]; metal-binding site 656024001599 substrate binding pocket [chemical binding]; other site 656024001600 Septum formation initiator; Region: DivIC; cl11433 656024001601 Protein of unknown function (DUF501); Region: DUF501; cl00652 656024001602 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 656024001603 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 656024001604 Winged helix-turn helix; Region: HTH_29; pfam13551 656024001605 Integrase core domain; Region: rve; cl01316 656024001606 Helix-turn-helix domains; Region: HTH; cl00088 656024001607 putative transposase OrfB; Reviewed; Region: PHA02517 656024001608 HTH-like domain; Region: HTH_21; pfam13276 656024001609 Integrase core domain; Region: rve; cl01316 656024001610 Integrase core domain; Region: rve_3; cl15866 656024001611 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 656024001612 Fe-S cluster binding site [ion binding]; other site 656024001613 DNA binding site [nucleotide binding] 656024001614 active site 656024001615 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 656024001616 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 656024001617 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024001618 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 656024001619 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 656024001620 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 656024001621 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 656024001622 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 656024001623 putative active site [active] 656024001624 heme pocket [chemical binding]; other site 656024001625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024001626 metal binding site [ion binding]; metal-binding site 656024001627 active site 656024001628 I-site; other site 656024001629 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 656024001630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024001631 metal binding site [ion binding]; metal-binding site 656024001632 active site 656024001633 I-site; other site 656024001634 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 656024001635 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 656024001636 metal ion-dependent adhesion site (MIDAS); other site 656024001637 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 656024001638 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 656024001639 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 656024001640 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 656024001641 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 656024001642 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 656024001643 tellurite resistance protein terB; Region: terB; cd07176 656024001644 putative metal binding site [ion binding]; other site 656024001645 RF-1 domain; Region: RF-1; cl02875 656024001646 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 656024001647 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024001648 aminoacyl-tRNA ligase; Region: PLN02563 656024001649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024001650 active site 656024001651 HIGH motif; other site 656024001652 nucleotide binding site [chemical binding]; other site 656024001653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024001654 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 656024001655 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 656024001656 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024001657 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024001658 active site 656024001659 KMSKS motif; other site 656024001660 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 656024001661 tRNA binding surface [nucleotide binding]; other site 656024001662 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 656024001663 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 656024001664 catalytic residues [active] 656024001665 Haemolysin-III related; Region: HlyIII; cl03831 656024001666 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 656024001667 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 656024001668 active site 656024001669 substrate-binding site [chemical binding]; other site 656024001670 metal-binding site [ion binding] 656024001671 GTP binding site [chemical binding]; other site 656024001672 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 656024001673 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 656024001674 putative active site [active] 656024001675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024001676 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 656024001677 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 656024001678 putative FMN binding site [chemical binding]; other site 656024001679 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 656024001680 putative hydrophobic ligand binding site [chemical binding]; other site 656024001681 protein interface [polypeptide binding]; other site 656024001682 gate; other site 656024001683 Winged helix-turn helix; Region: HTH_29; pfam13551 656024001684 Integrase core domain; Region: rve; cl01316 656024001685 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024001686 Integrase core domain; Region: rve; cl01316 656024001687 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 656024001688 nudix motif; other site 656024001689 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024001690 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 656024001691 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 656024001692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001693 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024001694 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 656024001695 fumarate hydratase; Reviewed; Region: fumC; PRK00485 656024001696 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 656024001697 active sites [active] 656024001698 tetramer interface [polypeptide binding]; other site 656024001699 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 656024001700 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 656024001701 putative active site [active] 656024001702 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 656024001703 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 656024001704 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 656024001705 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 656024001706 active site 656024001707 PemK-like protein; Region: PemK; cl00995 656024001708 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 656024001709 active site 656024001710 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 656024001711 putative active site [active] 656024001712 putative metal binding site [ion binding]; other site 656024001713 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 656024001714 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 656024001715 generic binding surface II; other site 656024001716 generic binding surface I; other site 656024001717 LytB protein; Region: LYTB; cl00507 656024001718 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 656024001719 MatE; Region: MatE; cl10513 656024001720 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024001721 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 656024001722 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 656024001723 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 656024001724 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024001725 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 656024001726 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 656024001727 active site 656024001728 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 656024001729 Ligand binding site; other site 656024001730 Putative Catalytic site; other site 656024001731 DXD motif; other site 656024001732 RmuC family; Region: RmuC; pfam02646 656024001733 GTP-binding protein YchF; Reviewed; Region: PRK09601 656024001734 YchF GTPase; Region: YchF; cd01900 656024001735 G1 box; other site 656024001736 GTP/Mg2+ binding site [chemical binding]; other site 656024001737 Switch I region; other site 656024001738 G2 box; other site 656024001739 Switch II region; other site 656024001740 G3 box; other site 656024001741 G4 box; other site 656024001742 G5 box; other site 656024001743 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 656024001744 TIR domain; Region: TIR_2; cl15770 656024001745 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 656024001746 Right handed beta helix region; Region: Beta_helix; pfam13229 656024001747 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; cd00488 656024001748 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 656024001749 DCoH tetramer interaction site [polypeptide binding]; other site 656024001750 aromatic arch; other site 656024001751 DCoH dimer interaction site [polypeptide binding]; other site 656024001752 substrate binding site [chemical binding]; other site 656024001753 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 656024001754 active site 656024001755 8-oxo-dGMP binding site [chemical binding]; other site 656024001756 nudix motif; other site 656024001757 metal binding site [ion binding]; metal-binding site 656024001758 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 656024001759 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 656024001760 G1 box; other site 656024001761 putative GEF interaction site [polypeptide binding]; other site 656024001762 GTP/Mg2+ binding site [chemical binding]; other site 656024001763 Switch I region; other site 656024001764 G2 box; other site 656024001765 G3 box; other site 656024001766 Switch II region; other site 656024001767 G4 box; other site 656024001768 G5 box; other site 656024001769 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 656024001770 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 656024001771 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 656024001772 Helix-turn-helix domains; Region: HTH; cl00088 656024001773 potential frameshift: common BLAST hit: gi|334345518|ref|YP_004554070.1| aminoglycoside phosphotransferase 656024001774 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 656024001775 putative active site [active] 656024001776 ATP binding site [chemical binding]; other site 656024001777 putative substrate binding site [chemical binding]; other site 656024001778 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 656024001779 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 656024001780 Ferredoxin [Energy production and conversion]; Region: COG1146 656024001781 4Fe-4S binding domain; Region: Fer4; cl02805 656024001782 succinyldiaminopimelate transaminase; Region: DapC_actino; TIGR03539 656024001783 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 656024001784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001785 homodimer interface [polypeptide binding]; other site 656024001786 catalytic residue [active] 656024001787 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 656024001788 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 656024001789 trimer interface [polypeptide binding]; other site 656024001790 active site 656024001791 substrate binding site [chemical binding]; other site 656024001792 CoA binding site [chemical binding]; other site 656024001793 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 656024001794 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 656024001795 metal binding site [ion binding]; metal-binding site 656024001796 putative dimer interface [polypeptide binding]; other site 656024001797 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 656024001798 dihydropteroate synthase; Region: DHPS; TIGR01496 656024001799 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 656024001800 substrate binding pocket [chemical binding]; other site 656024001801 dimer interface [polypeptide binding]; other site 656024001802 inhibitor binding site; inhibition site 656024001803 DivIVA domain; Region: DivI1A_domain; TIGR03544 656024001804 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 656024001805 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 656024001806 interface (dimer of trimers) [polypeptide binding]; other site 656024001807 Substrate-binding/catalytic site; other site 656024001808 Zn-binding sites [ion binding]; other site 656024001809 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 656024001810 S-adenosylmethionine binding site [chemical binding]; other site 656024001811 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 656024001812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024001813 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 656024001814 DNA binding residues [nucleotide binding] 656024001815 Putative zinc-finger; Region: zf-HC2; cl15806 656024001816 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 656024001817 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 656024001818 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 656024001819 Domain of unknown function DUF59; Region: DUF59; cl00941 656024001820 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 656024001821 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 656024001822 Transcriptional regulators [Transcription]; Region: MarR; COG1846 656024001823 Helix-turn-helix domains; Region: HTH; cl00088 656024001824 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 656024001825 PhoD-like phosphatase; Region: PhoD; pfam09423 656024001826 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 656024001827 putative active site [active] 656024001828 putative metal binding site [ion binding]; other site 656024001829 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 656024001830 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 656024001831 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 656024001832 Protein kinase domain; Region: Pkinase; pfam00069 656024001833 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024001834 active site 656024001835 ATP binding site [chemical binding]; other site 656024001836 substrate binding site [chemical binding]; other site 656024001837 activation loop (A-loop); other site 656024001838 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 656024001839 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024001840 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024001841 NAD(P) binding site [chemical binding]; other site 656024001842 catalytic residues [active] 656024001843 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 656024001844 CrcB-like protein; Region: CRCB; cl09114 656024001845 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 656024001846 CrcB-like protein; Region: CRCB; cl09114 656024001847 YCII-related domain; Region: YCII; cl00999 656024001848 Protein of unknown function (DUF433); Region: DUF433; cl01030 656024001849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024001850 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_15; cd04673 656024001851 nudix motif; other site 656024001852 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 656024001853 putative active site [active] 656024001854 putative catalytic site [active] 656024001855 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 656024001856 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024001857 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024001858 putative metal binding site [ion binding]; other site 656024001859 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024001860 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024001861 putative metal binding site [ion binding]; other site 656024001862 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024001863 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024001864 active site 656024001865 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 656024001866 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024001867 putative active site [active] 656024001868 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024001869 MgtE intracellular N domain; Region: MgtE_N; cl15244 656024001870 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 656024001871 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 656024001872 Chorismate mutase type II; Region: CM_2; cl00693 656024001873 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 656024001874 hypothetical protein; Provisional; Region: PRK08912 656024001875 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 656024001876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001877 homodimer interface [polypeptide binding]; other site 656024001878 catalytic residue [active] 656024001879 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 656024001880 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024001881 Domain of unknown function DUF21; Region: DUF21; pfam01595 656024001882 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 656024001883 Domain of unknown function DUF21; Region: DUF21; pfam01595 656024001884 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 656024001885 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 656024001886 Transporter associated domain; Region: CorC_HlyC; cl08393 656024001887 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 656024001888 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 656024001889 P-loop; other site 656024001890 Magnesium ion binding site [ion binding]; other site 656024001891 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 656024001892 Magnesium ion binding site [ion binding]; other site 656024001893 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 656024001894 DEAD-like helicases superfamily; Region: DEXDc; smart00487 656024001895 ATP binding site [chemical binding]; other site 656024001896 Mg++ binding site [ion binding]; other site 656024001897 motif III; other site 656024001898 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 656024001899 nucleotide binding region [chemical binding]; other site 656024001900 ATP-binding site [chemical binding]; other site 656024001901 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 656024001902 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 656024001903 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024001904 Helix-turn-helix domains; Region: HTH; cl00088 656024001905 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 656024001906 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 656024001907 putative DNA binding site [nucleotide binding]; other site 656024001908 putative homodimer interface [polypeptide binding]; other site 656024001909 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 656024001910 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 656024001911 ATP binding site [chemical binding]; other site 656024001912 substrate interface [chemical binding]; other site 656024001913 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 656024001914 active site residue [active] 656024001915 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 656024001916 DNA binding site [nucleotide binding] 656024001917 active site 656024001918 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 656024001919 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 656024001920 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 656024001921 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 656024001922 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 656024001923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024001924 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 656024001925 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 656024001926 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 656024001927 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 656024001928 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 656024001929 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 656024001930 active site 656024001931 HIGH motif; other site 656024001932 dimer interface [polypeptide binding]; other site 656024001933 KMSKS motif; other site 656024001934 Helix-turn-helix domains; Region: HTH; cl00088 656024001935 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 656024001936 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 656024001937 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 656024001938 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 656024001939 ANTAR domain; Region: ANTAR; cl04297 656024001940 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 656024001941 catalytic residues [active] 656024001942 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 656024001943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024001944 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 656024001945 Family description; Region: UvrD_C_2; cl15862 656024001946 HRDC domain; Region: HRDC; cl02578 656024001947 Transcription factor WhiB; Region: Whib; pfam02467 656024001948 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 656024001949 Sulfatase; Region: Sulfatase; cl10460 656024001950 Abi-like protein; Region: Abi_2; cl01988 656024001951 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024001952 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024001953 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 656024001954 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 656024001955 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024001956 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 656024001957 active site 656024001958 ATP binding site [chemical binding]; other site 656024001959 enoyl-CoA hydratase; Provisional; Region: PRK09245 656024001960 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 656024001961 substrate binding site [chemical binding]; other site 656024001962 oxyanion hole (OAH) forming residues; other site 656024001963 trimer interface [polypeptide binding]; other site 656024001964 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 656024001965 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 656024001966 MoaE homodimer interface [polypeptide binding]; other site 656024001967 MoaD interaction [polypeptide binding]; other site 656024001968 active site residues [active] 656024001969 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 656024001970 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 656024001971 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 656024001972 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 656024001973 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 656024001974 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 656024001975 Int/Topo IB signature motif; other site 656024001976 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024001977 AAA domain; Region: AAA_25; pfam13481 656024001978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024001979 Walker A motif; other site 656024001980 ATP binding site [chemical binding]; other site 656024001981 Walker B motif; other site 656024001982 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 656024001983 active site 656024001984 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 656024001985 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 656024001986 non-specific DNA binding site [nucleotide binding]; other site 656024001987 salt bridge; other site 656024001988 sequence-specific DNA binding site [nucleotide binding]; other site 656024001989 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 656024001990 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 656024001991 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 656024001992 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 656024001993 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 656024001994 inhibitor-cofactor binding pocket; inhibition site 656024001995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024001996 catalytic residue [active] 656024001997 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 656024001998 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 656024001999 inhibitor-cofactor binding pocket; inhibition site 656024002000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024002001 catalytic residue [active] 656024002002 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024002003 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 656024002004 tetrameric interface [polypeptide binding]; other site 656024002005 NAD binding site [chemical binding]; other site 656024002006 catalytic residues [active] 656024002007 substrate binding site [chemical binding]; other site 656024002008 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024002009 Secretory lipase; Region: LIP; pfam03583 656024002010 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 656024002011 active site 656024002012 catalytic site [active] 656024002013 metal binding site [ion binding]; metal-binding site 656024002014 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 656024002015 active site 656024002016 ribosome small subunit-dependent GTPase A; Region: TIGR00157 656024002017 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 656024002018 GTPase/Zn-binding domain interface [polypeptide binding]; other site 656024002019 GTP/Mg2+ binding site [chemical binding]; other site 656024002020 G4 box; other site 656024002021 G1 box; other site 656024002022 Switch I region; other site 656024002023 G2 box; other site 656024002024 G3 box; other site 656024002025 Switch II region; other site 656024002026 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 656024002027 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 656024002028 hinge; other site 656024002029 active site 656024002030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002031 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 656024002032 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 656024002033 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024002034 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 656024002035 DNA binding residues [nucleotide binding] 656024002036 Putative zinc-finger; Region: zf-HC2; cl15806 656024002037 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024002038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002039 NAD(P) binding site [chemical binding]; other site 656024002040 active site 656024002041 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 656024002042 carboxyltransferase (CT) interaction site; other site 656024002043 biotinylation site [posttranslational modification]; other site 656024002044 biotin synthase; Validated; Region: PRK06256 656024002045 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 656024002046 FeS/SAM binding site; other site 656024002047 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 656024002048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002049 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 656024002050 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 656024002051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024002052 catalytic residue [active] 656024002053 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 656024002054 Histidine kinase; Region: HisKA_2; cl06527 656024002055 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 656024002056 ATP binding site [chemical binding]; other site 656024002057 Mg2+ binding site [ion binding]; other site 656024002058 G-X-G motif; other site 656024002059 Transcription factor WhiB; Region: Whib; pfam02467 656024002060 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 656024002061 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 656024002062 active site 656024002063 catalytic site [active] 656024002064 metal binding site [ion binding]; metal-binding site 656024002065 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 656024002066 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 656024002067 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 656024002068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024002069 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 656024002070 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 656024002071 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 656024002072 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 656024002073 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; cd06462 656024002074 Catalytic site [active] 656024002075 Cupin domain; Region: Cupin_2; cl09118 656024002076 Malic enzyme, N-terminal domain; Region: malic; pfam00390 656024002077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002078 NAD(P) binding pocket [chemical binding]; other site 656024002079 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 656024002080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002081 NAD(P) binding site [chemical binding]; other site 656024002082 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 656024002083 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 656024002084 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 656024002085 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 656024002086 TPP-binding site [chemical binding]; other site 656024002087 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 656024002088 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 656024002089 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 656024002090 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 656024002091 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 656024002092 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024002093 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024002094 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 656024002095 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 656024002096 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 656024002097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002098 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 656024002099 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 656024002100 putative Iron-sulfur protein interface [polypeptide binding]; other site 656024002101 putative proximal heme binding site [chemical binding]; other site 656024002102 putative SdhC-like subunit interface [polypeptide binding]; other site 656024002103 putative distal heme binding site [chemical binding]; other site 656024002104 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase C (SdhC)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhC_like; cd03501 656024002105 putative Iron-sulfur protein interface [polypeptide binding]; other site 656024002106 putative proximal heme binding site [chemical binding]; other site 656024002107 putative SdhD-like interface [polypeptide binding]; other site 656024002108 putative distal heme binding site [chemical binding]; other site 656024002109 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024002110 Tyrosine kinase, catalytic domain; Region: TyrKc; smart00219 656024002111 active site 656024002112 ATP binding site [chemical binding]; other site 656024002113 substrate binding site [chemical binding]; other site 656024002114 activation loop (A-loop); other site 656024002115 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024002116 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024002117 active site 656024002118 ATP binding site [chemical binding]; other site 656024002119 substrate binding site [chemical binding]; other site 656024002120 activation loop (A-loop); other site 656024002121 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 656024002122 active site 656024002123 catalytic motif [active] 656024002124 Zn binding site [ion binding]; other site 656024002125 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 656024002126 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 656024002127 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 656024002128 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 656024002129 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 656024002130 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 656024002131 active site 656024002132 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 656024002133 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 656024002134 intersubunit interface [polypeptide binding]; other site 656024002135 active site 656024002136 catalytic residue [active] 656024002137 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024002138 active site 656024002139 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 656024002140 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 656024002141 active site 656024002142 substrate binding site [chemical binding]; other site 656024002143 metal binding site [ion binding]; metal-binding site 656024002144 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 656024002145 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 656024002146 EamA-like transporter family; Region: EamA; cl01037 656024002147 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 656024002148 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 656024002149 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 656024002150 TIR domain; Region: TIR_2; cl15770 656024002151 TIR domain; Region: TIR_2; cl15770 656024002152 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002153 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002154 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 656024002155 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002156 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 656024002157 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 656024002158 dimer interface [polypeptide binding]; other site 656024002159 anticodon binding site; other site 656024002160 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 656024002161 motif 1; other site 656024002162 dimer interface [polypeptide binding]; other site 656024002163 active site 656024002164 motif 2; other site 656024002165 GAD domain; Region: GAD; pfam02938 656024002166 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 656024002167 active site 656024002168 motif 3; other site 656024002169 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 656024002170 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 656024002171 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 656024002172 amidohydrolase; Region: amidohydrolases; TIGR01891 656024002173 metal binding site [ion binding]; metal-binding site 656024002174 putative dimer interface [polypeptide binding]; other site 656024002175 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 656024002176 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024002177 Helix-turn-helix domains; Region: HTH; cl00088 656024002178 Helix-turn-helix domains; Region: HTH; cl00088 656024002179 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 656024002180 putative active site pocket [active] 656024002181 dimerization interface [polypeptide binding]; other site 656024002182 putative catalytic residue [active] 656024002183 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 656024002184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024002185 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 656024002186 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 656024002187 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024002188 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024002189 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 656024002190 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 656024002191 carboxyltransferase (CT) interaction site; other site 656024002192 biotinylation site [posttranslational modification]; other site 656024002193 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 656024002194 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 656024002195 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024002196 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024002197 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 656024002198 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 656024002199 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 656024002200 Bacterial PH domain; Region: DUF304; cl01348 656024002201 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 656024002202 GtrA-like protein; Region: GtrA; cl00971 656024002203 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_cladeD; cd03379 656024002204 active site clefts [active] 656024002205 zinc binding site [ion binding]; other site 656024002206 dimer interface [polypeptide binding]; other site 656024002207 AMP-binding enzyme; Region: AMP-binding; cl15778 656024002208 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 656024002209 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 656024002210 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 656024002211 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 656024002212 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 656024002213 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 656024002214 substrate binding site; other site 656024002215 metal-binding site 656024002216 Oligomer interface; other site 656024002217 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 656024002218 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 656024002219 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 656024002220 NADP binding site [chemical binding]; other site 656024002221 active site 656024002222 putative substrate binding site [chemical binding]; other site 656024002223 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 656024002224 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 656024002225 active site 656024002226 HIGH motif; other site 656024002227 KMSKS motif; other site 656024002228 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 656024002229 tRNA binding surface [nucleotide binding]; other site 656024002230 anticodon binding site; other site 656024002231 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 656024002232 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 656024002233 S-adenosylmethionine binding site [chemical binding]; other site 656024002234 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 656024002235 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 656024002236 Helix-turn-helix domains; Region: HTH; cl00088 656024002237 putative transposase OrfB; Reviewed; Region: PHA02517 656024002238 HTH-like domain; Region: HTH_21; pfam13276 656024002239 Integrase core domain; Region: rve; cl01316 656024002240 Integrase core domain; Region: rve_3; cl15866 656024002241 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 656024002242 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 656024002243 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 656024002244 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 656024002245 Probable Catalytic site; other site 656024002246 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 656024002247 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 656024002248 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 656024002249 Walker A/P-loop; other site 656024002250 ATP binding site [chemical binding]; other site 656024002251 Q-loop/lid; other site 656024002252 ABC transporter signature motif; other site 656024002253 Walker B; other site 656024002254 D-loop; other site 656024002255 H-loop/switch region; other site 656024002256 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024002257 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024002258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002259 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024002260 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 656024002261 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 656024002262 trimer interface [polypeptide binding]; other site 656024002263 active site 656024002264 substrate binding site [chemical binding]; other site 656024002265 CoA binding site [chemical binding]; other site 656024002266 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 656024002267 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 656024002268 Ligand binding site; other site 656024002269 Putative Catalytic site; other site 656024002270 DXD motif; other site 656024002271 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 656024002272 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 656024002273 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 656024002274 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 656024002275 S-adenosylmethionine binding site [chemical binding]; other site 656024002276 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 656024002277 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 656024002278 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 656024002279 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 656024002280 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 656024002281 Probable Catalytic site; other site 656024002282 metal-binding site 656024002283 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024002284 putative active site [active] 656024002285 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 656024002286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002287 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 656024002288 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 656024002289 active site 656024002290 Substrate binding site; other site 656024002291 Mg++ binding site; other site 656024002292 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 656024002293 F420-0--gamma-glutamyl ligase; Provisional; Region: PRK13294 656024002294 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 656024002295 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 656024002296 putative FMN binding site [chemical binding]; other site 656024002297 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 656024002298 phosphate binding site [ion binding]; other site 656024002299 dimer interface [polypeptide binding]; other site 656024002300 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 656024002301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024002302 Helix-turn-helix domains; Region: HTH; cl00088 656024002303 FO synthase; Reviewed; Region: fbiC; PRK09234 656024002304 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 656024002305 FeS/SAM binding site; other site 656024002306 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 656024002307 FeS/SAM binding site; other site 656024002308 Transcription factor WhiB; Region: Whib; pfam02467 656024002309 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 656024002310 active site 656024002311 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 656024002312 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 656024002313 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 656024002314 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 656024002315 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 656024002316 active site 656024002317 substrate binding site [chemical binding]; other site 656024002318 metal binding site [ion binding]; metal-binding site 656024002319 Trm112p-like protein; Region: Trm112p; cl01066 656024002320 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 656024002321 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 656024002322 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 656024002323 Transglycosylase; Region: Transgly; cl07896 656024002324 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 656024002325 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024002326 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 656024002327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002328 oligomerization interface [polypeptide binding]; other site 656024002329 active site 656024002330 NAD+ binding site [chemical binding]; other site 656024002331 RDD family; Region: RDD; cl00746 656024002332 Integral membrane protein DUF95; Region: DUF95; cl00572 656024002333 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 656024002334 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 656024002335 MoxR-like ATPases [General function prediction only]; Region: COG0714 656024002336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002337 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 656024002338 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 656024002339 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 656024002340 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 656024002341 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 656024002342 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 656024002343 30S subunit binding site; other site 656024002344 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024002345 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 656024002346 active site 656024002347 phosphorylation site [posttranslational modification] 656024002348 intermolecular recognition site; other site 656024002349 dimerization interface [polypeptide binding]; other site 656024002350 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 656024002351 DNA binding residues [nucleotide binding] 656024002352 dimerization interface [polypeptide binding]; other site 656024002353 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024002354 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 656024002355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002356 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 656024002357 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 656024002358 nucleotide binding region [chemical binding]; other site 656024002359 SEC-C motif; Region: SEC-C; pfam02810 656024002360 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 656024002361 putative peptidoglycan binding site; other site 656024002362 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024002363 SAF domain; Region: SAF; cl00555 656024002364 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 656024002365 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 656024002366 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 656024002367 nucleophile elbow; other site 656024002368 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024002369 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024002370 NAD(P) binding site [chemical binding]; other site 656024002371 catalytic residues [active] 656024002372 Uncharacterized conserved protein [Function unknown]; Region: COG3743 656024002373 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 656024002374 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 656024002375 ATP binding site [chemical binding]; other site 656024002376 Walker A motif; other site 656024002377 hexamer interface [polypeptide binding]; other site 656024002378 Walker B motif; other site 656024002379 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024002380 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024002381 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 656024002382 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024002383 active site 656024002384 ATP binding site [chemical binding]; other site 656024002385 substrate binding site [chemical binding]; other site 656024002386 activation loop (A-loop); other site 656024002387 Integrase core domain; Region: rve; cl01316 656024002388 peptide chain release factor 2; Validated; Region: prfB; PRK00578 656024002389 RF-1 domain; Region: RF-1; cl02875 656024002390 RF-1 domain; Region: RF-1; cl02875 656024002391 TIR domain; Region: TIR_2; cl15770 656024002392 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024002393 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 656024002394 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 656024002395 AAA domain; Region: AAA_33; pfam13671 656024002396 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 656024002397 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 656024002398 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 656024002399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002400 Walker A/P-loop; other site 656024002401 ATP binding site [chemical binding]; other site 656024002402 Q-loop/lid; other site 656024002403 ABC transporter signature motif; other site 656024002404 Walker B; other site 656024002405 D-loop; other site 656024002406 H-loop/switch region; other site 656024002407 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 656024002408 FtsX-like permease family; Region: FtsX; cl15850 656024002409 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 656024002410 SmpB-tmRNA interface; other site 656024002411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024002412 Helix-turn-helix domains; Region: HTH; cl00088 656024002413 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 656024002414 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024002415 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 656024002416 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024002417 active site 656024002418 nucleotide binding site [chemical binding]; other site 656024002419 HIGH motif; other site 656024002420 KMSKS motif; other site 656024002421 Helix-turn-helix domains; Region: HTH; cl00088 656024002422 transcriptional regulator SlyA; Provisional; Region: PRK03573 656024002423 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 656024002424 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 656024002425 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 656024002426 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 656024002427 FOG: CBS domain [General function prediction only]; Region: COG0517 656024002428 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 656024002429 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 656024002430 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 656024002431 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024002432 Helix-turn-helix domains; Region: HTH; cl00088 656024002433 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 656024002434 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 656024002435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002436 NAD(P) binding site [chemical binding]; other site 656024002437 active site 656024002438 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 656024002439 active site lid residues [active] 656024002440 substrate binding pocket [chemical binding]; other site 656024002441 catalytic residues [active] 656024002442 substrate-Mg2+ binding site; other site 656024002443 aspartate-rich region 1; other site 656024002444 aspartate-rich region 2; other site 656024002445 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 656024002446 active site lid residues [active] 656024002447 substrate binding pocket [chemical binding]; other site 656024002448 catalytic residues [active] 656024002449 substrate-Mg2+ binding site; other site 656024002450 aspartate-rich region 1; other site 656024002451 aspartate-rich region 2; other site 656024002452 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 656024002453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002454 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 656024002455 substrate binding pocket [chemical binding]; other site 656024002456 chain length determination region; other site 656024002457 substrate-Mg2+ binding site; other site 656024002458 catalytic residues [active] 656024002459 aspartate-rich region 1; other site 656024002460 active site lid residues [active] 656024002461 aspartate-rich region 2; other site 656024002462 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 656024002463 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 656024002464 Active site cavity [active] 656024002465 catalytic acid [active] 656024002466 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 656024002467 LytB protein; Region: LYTB; cl00507 656024002468 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 656024002469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002470 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024002471 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024002472 active site 656024002473 ATP binding site [chemical binding]; other site 656024002474 substrate binding site [chemical binding]; other site 656024002475 activation loop (A-loop); other site 656024002476 NMT1/THI5 like; Region: NMT1; pfam09084 656024002477 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 656024002478 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 656024002479 FeS/SAM binding site; other site 656024002480 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 656024002481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024002482 Helix-turn-helix domains; Region: HTH; cl00088 656024002483 Helix-turn-helix domains; Region: HTH; cl00088 656024002484 putative transposase OrfB; Reviewed; Region: PHA02517 656024002485 HTH-like domain; Region: HTH_21; pfam13276 656024002486 Integrase core domain; Region: rve; cl01316 656024002487 Integrase core domain; Region: rve_3; cl15866 656024002488 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 656024002489 CoenzymeA binding site [chemical binding]; other site 656024002490 subunit interaction site [polypeptide binding]; other site 656024002491 PHB binding site; other site 656024002492 UreD urease accessory protein; Region: UreD; cl00530 656024002493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002494 Helix-turn-helix domains; Region: HTH; cl00088 656024002495 Winged helix-turn helix; Region: HTH_29; pfam13551 656024002496 Helix-turn-helix domains; Region: HTH; cl00088 656024002497 Integrase core domain; Region: rve; cl01316 656024002498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024002499 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 656024002500 UreF; Region: UreF; pfam01730 656024002501 urease subunit alpha; Reviewed; Region: ureC; PRK13206 656024002502 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 656024002503 subunit interactions [polypeptide binding]; other site 656024002504 active site 656024002505 flap region; other site 656024002506 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 656024002507 gamma-beta subunit interface [polypeptide binding]; other site 656024002508 alpha-beta subunit interface [polypeptide binding]; other site 656024002509 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 656024002510 alpha-gamma subunit interface [polypeptide binding]; other site 656024002511 beta-gamma subunit interface [polypeptide binding]; other site 656024002512 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 656024002513 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 656024002514 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 656024002515 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 656024002516 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 656024002517 iron-sulfur cluster [ion binding]; other site 656024002518 [2Fe-2S] cluster binding site [ion binding]; other site 656024002519 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 656024002520 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 656024002521 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 656024002522 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 656024002523 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 656024002524 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 656024002525 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 656024002526 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 656024002527 putative bifunctional allantoicase/OHCU decarboxylase; Provisional; Region: PRK13797 656024002528 Allantoicase repeat; Region: Allantoicase; pfam03561 656024002529 Allantoicase repeat; Region: Allantoicase; pfam03561 656024002530 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 656024002531 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 656024002532 active site 656024002533 homotetramer interface [polypeptide binding]; other site 656024002534 Domain of unknown function (DUF202); Region: DUF202; cl09954 656024002535 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 656024002536 Divergent AAA domain; Region: AAA_4; pfam04326 656024002537 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 656024002538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002539 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 656024002540 CbiD; Region: CbiD; cl00828 656024002541 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 656024002542 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 656024002543 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 656024002544 Precorrin-8X methylmutase; Region: CbiC; pfam02570 656024002545 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024002546 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 656024002547 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; cl15754 656024002548 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024002549 Integrase core domain; Region: rve; cl01316 656024002550 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024002551 Protein of unknown function DUF86; Region: DUF86; cl01031 656024002552 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 656024002553 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 656024002554 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 656024002555 active site 656024002556 putative substrate binding pocket [chemical binding]; other site 656024002557 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 656024002558 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 656024002559 Arginase family; Region: Arginase; cl00306 656024002560 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024002561 putative ligand binding site [chemical binding]; other site 656024002562 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 656024002563 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 656024002564 Walker A/P-loop; other site 656024002565 ATP binding site [chemical binding]; other site 656024002566 Q-loop/lid; other site 656024002567 ABC transporter signature motif; other site 656024002568 Walker B; other site 656024002569 D-loop; other site 656024002570 H-loop/switch region; other site 656024002571 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 656024002572 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 656024002573 Walker A/P-loop; other site 656024002574 ATP binding site [chemical binding]; other site 656024002575 Q-loop/lid; other site 656024002576 ABC transporter signature motif; other site 656024002577 Walker B; other site 656024002578 D-loop; other site 656024002579 H-loop/switch region; other site 656024002580 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 656024002581 TM-ABC transporter signature motif; other site 656024002582 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 656024002583 TM-ABC transporter signature motif; other site 656024002584 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 656024002585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002586 NAD(P) binding site [chemical binding]; other site 656024002587 active site 656024002588 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 656024002589 non-specific DNA binding site [nucleotide binding]; other site 656024002590 salt bridge; other site 656024002591 sequence-specific DNA binding site [nucleotide binding]; other site 656024002592 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 656024002593 nudix motif; other site 656024002594 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024002595 putative nicotinate phosphoribosyltransferase; Region: NAPRTase_put; TIGR01513 656024002596 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 656024002597 active site 656024002598 Winged helix-turn helix; Region: HTH_29; pfam13551 656024002599 Integrase core domain; Region: rve; cl01316 656024002600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024002601 metal binding site [ion binding]; metal-binding site 656024002602 active site 656024002603 I-site; other site 656024002604 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 656024002605 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 656024002606 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 656024002607 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 656024002608 MPN+ (JAMM) motif; other site 656024002609 Zinc-binding site [ion binding]; other site 656024002610 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 656024002611 MoaE interaction surface [polypeptide binding]; other site 656024002612 MoeB interaction surface [polypeptide binding]; other site 656024002613 thiocarboxylated glycine; other site 656024002614 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 656024002615 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 656024002616 dimer interface [polypeptide binding]; other site 656024002617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024002618 catalytic residue [active] 656024002619 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024002620 ribonuclease PH; Reviewed; Region: rph; PRK00173 656024002621 Ribonuclease PH; Region: RNase_PH_bact; cd11362 656024002622 hexamer interface [polypeptide binding]; other site 656024002623 active site 656024002624 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 656024002625 active site 656024002626 dimerization interface [polypeptide binding]; other site 656024002627 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024002628 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024002629 PemK-like protein; Region: PemK; cl00995 656024002630 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 656024002631 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024002632 Integrase core domain; Region: rve; cl01316 656024002633 Helix-turn-helix domains; Region: HTH; cl00088 656024002634 putative transposase OrfB; Reviewed; Region: PHA02517 656024002635 HTH-like domain; Region: HTH_21; pfam13276 656024002636 Integrase core domain; Region: rve; cl01316 656024002637 Integrase core domain; Region: rve_3; cl15866 656024002638 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 656024002639 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 656024002640 Helix-turn-helix domains; Region: HTH; cl00088 656024002641 putative transposase OrfB; Reviewed; Region: PHA02517 656024002642 HTH-like domain; Region: HTH_21; pfam13276 656024002643 Integrase core domain; Region: rve; cl01316 656024002644 Integrase core domain; Region: rve_3; cl15866 656024002645 TIR domain; Region: TIR_2; cl15770 656024002646 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002647 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 656024002648 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002649 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002650 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002651 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024002652 Helix-turn-helix domains; Region: HTH; cl00088 656024002653 putative transposase OrfB; Reviewed; Region: PHA02517 656024002654 HTH-like domain; Region: HTH_21; pfam13276 656024002655 Integrase core domain; Region: rve; cl01316 656024002656 Integrase core domain; Region: rve_3; cl15866 656024002657 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024002658 nudix motif; other site 656024002659 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 656024002660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024002661 DNA-binding site [nucleotide binding]; DNA binding site 656024002662 UTRA domain; Region: UTRA; cl01230 656024002663 Transcription factor WhiB; Region: Whib; pfam02467 656024002664 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 656024002665 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 656024002666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 656024002667 catalytic residue [active] 656024002668 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024002669 nudix motif; other site 656024002670 Helix-turn-helix domains; Region: HTH; cl00088 656024002671 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024002672 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 656024002673 DNA binding site [nucleotide binding] 656024002674 Int/Topo IB signature motif; other site 656024002675 active site 656024002676 catalytic residues [active] 656024002677 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 656024002678 catalytic triad [active] 656024002679 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 656024002680 S-adenosylmethionine binding site [chemical binding]; other site 656024002681 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 656024002682 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 656024002683 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 656024002684 Cu(I) binding site [ion binding]; other site 656024002685 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 656024002686 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 656024002687 metal binding site 2 [ion binding]; metal-binding site 656024002688 putative DNA binding helix; other site 656024002689 metal binding site 1 [ion binding]; metal-binding site 656024002690 dimer interface [polypeptide binding]; other site 656024002691 structural Zn2+ binding site [ion binding]; other site 656024002692 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 656024002693 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 656024002694 tetramer interface [polypeptide binding]; other site 656024002695 heme binding pocket [chemical binding]; other site 656024002696 NADPH binding site [chemical binding]; other site 656024002697 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 656024002698 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 656024002699 catalytic residues [active] 656024002700 dimer interface [polypeptide binding]; other site 656024002701 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024002702 nudix motif; other site 656024002703 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024002704 nudix motif; other site 656024002705 tellurite resistance protein terB; Region: terB; cd07176 656024002706 putative metal binding site [ion binding]; other site 656024002707 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 656024002708 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 656024002709 Gammaherpesvirus latent membrane protein (LMP2) protein; Region: Herpes_LMP2; pfam07415 656024002710 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 656024002711 oligomerisation interface [polypeptide binding]; other site 656024002712 mobile loop; other site 656024002713 roof hairpin; other site 656024002714 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 656024002715 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 656024002716 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 656024002717 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 656024002718 DNA binding residues [nucleotide binding] 656024002719 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 656024002720 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 656024002721 phosphate binding site [ion binding]; other site 656024002722 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 656024002723 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 656024002724 active site 656024002725 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024002726 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 656024002727 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024002728 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 656024002729 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024002730 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 656024002731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024002732 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 656024002733 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 656024002734 active site 656024002735 TDP-binding site; other site 656024002736 acceptor substrate-binding pocket; other site 656024002737 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 656024002738 ThiC-associated domain; Region: ThiC-associated; pfam13667 656024002739 ThiC family; Region: ThiC; cl08031 656024002740 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 656024002741 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 656024002742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002743 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 656024002744 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 656024002745 homodimer interface [polypeptide binding]; other site 656024002746 putative substrate binding pocket [chemical binding]; other site 656024002747 diiron center [ion binding]; other site 656024002748 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 656024002749 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 656024002750 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024002751 active site 656024002752 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 656024002753 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024002754 active site 656024002755 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 656024002756 FAD binding domain; Region: FAD_binding_4; pfam01565 656024002757 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 656024002758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002759 NAD(P) binding site [chemical binding]; other site 656024002760 active site 656024002761 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 656024002762 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024002763 phosphopeptide binding site; other site 656024002764 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024002765 phosphopeptide binding site; other site 656024002766 ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes...; Region: ABCG_EPDR; cd03213 656024002767 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024002768 Walker A/P-loop; other site 656024002769 ATP binding site [chemical binding]; other site 656024002770 Q-loop/lid; other site 656024002771 ABC transporter signature motif; other site 656024002772 Walker B; other site 656024002773 D-loop; other site 656024002774 H-loop/switch region; other site 656024002775 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024002776 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024002777 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024002778 active site 656024002779 ATP binding site [chemical binding]; other site 656024002780 substrate binding site [chemical binding]; other site 656024002781 activation loop (A-loop); other site 656024002782 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 656024002783 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 656024002784 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 656024002785 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 656024002786 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024002787 hypothetical protein; Provisional; Region: PRK07877 656024002788 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 656024002789 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 656024002790 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024002791 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 656024002792 active site 656024002793 phosphorylation site [posttranslational modification] 656024002794 intermolecular recognition site; other site 656024002795 dimerization interface [polypeptide binding]; other site 656024002796 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 656024002797 DNA binding residues [nucleotide binding] 656024002798 dimerization interface [polypeptide binding]; other site 656024002799 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 656024002800 Ligand Binding Site [chemical binding]; other site 656024002801 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 656024002802 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 656024002803 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 656024002804 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 656024002805 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 656024002806 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 656024002807 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 656024002808 Walker A/P-loop; other site 656024002809 ATP binding site [chemical binding]; other site 656024002810 Q-loop/lid; other site 656024002811 ABC transporter signature motif; other site 656024002812 Walker B; other site 656024002813 D-loop; other site 656024002814 H-loop/switch region; other site 656024002815 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 656024002816 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024002817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002818 Walker A/P-loop; other site 656024002819 ATP binding site [chemical binding]; other site 656024002820 Q-loop/lid; other site 656024002821 ABC transporter signature motif; other site 656024002822 Walker B; other site 656024002823 D-loop; other site 656024002824 H-loop/switch region; other site 656024002825 GAF domain; Region: GAF_2; pfam13185 656024002826 GAF domain; Region: GAF; cl15785 656024002827 GAF domain; Region: GAF; cl15785 656024002828 Histidine kinase; Region: HisKA_3; pfam07730 656024002829 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 656024002830 ATP binding site [chemical binding]; other site 656024002831 Mg2+ binding site [ion binding]; other site 656024002832 G-X-G motif; other site 656024002833 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 656024002834 TIR domain; Region: TIR_2; cl15770 656024002835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024002836 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024002837 OsmC-like protein; Region: OsmC; cl00767 656024002838 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 656024002839 intersubunit interface [polypeptide binding]; other site 656024002840 active site 656024002841 Zn2+ binding site [ion binding]; other site 656024002842 glycerol kinase; Provisional; Region: glpK; PRK00047 656024002843 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 656024002844 N- and C-terminal domain interface [polypeptide binding]; other site 656024002845 active site 656024002846 MgATP binding site [chemical binding]; other site 656024002847 catalytic site [active] 656024002848 metal binding site [ion binding]; metal-binding site 656024002849 carbohydrate binding site [chemical binding]; other site 656024002850 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 656024002851 [2Fe-2S] cluster binding site [ion binding]; other site 656024002852 putative transposase OrfB; Reviewed; Region: PHA02517 656024002853 HTH-like domain; Region: HTH_21; pfam13276 656024002854 Integrase core domain; Region: rve; cl01316 656024002855 Integrase core domain; Region: rve_3; cl15866 656024002856 Helix-turn-helix domains; Region: HTH; cl00088 656024002857 Helix-turn-helix domains; Region: HTH; cl00088 656024002858 putative transposase OrfB; Reviewed; Region: PHA02517 656024002859 HTH-like domain; Region: HTH_21; pfam13276 656024002860 Integrase core domain; Region: rve; cl01316 656024002861 Integrase core domain; Region: rve_3; cl15866 656024002862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002863 Abortive infection C-terminus; Region: Abi_C; pfam14355 656024002864 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 656024002865 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 656024002866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002867 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 656024002868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024002869 DNA-binding site [nucleotide binding]; DNA binding site 656024002870 Major Facilitator Superfamily; Region: MFS_1; pfam07690 656024002871 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 656024002872 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024002873 oligomeric interface; other site 656024002874 putative active site [active] 656024002875 homodimer interface [polypeptide binding]; other site 656024002876 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024002877 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 656024002878 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 656024002879 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 656024002880 putative substrate translocation pore; other site 656024002881 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 656024002882 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 656024002883 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 656024002884 Helix-turn-helix domains; Region: HTH; cl00088 656024002885 putative transposase OrfB; Reviewed; Region: PHA02517 656024002886 HTH-like domain; Region: HTH_21; pfam13276 656024002887 Integrase core domain; Region: rve; cl01316 656024002888 Integrase core domain; Region: rve_3; cl15866 656024002889 Helix-turn-helix domains; Region: HTH; cl00088 656024002890 putative transposase OrfB; Reviewed; Region: PHA02517 656024002891 HTH-like domain; Region: HTH_21; pfam13276 656024002892 Integrase core domain; Region: rve; cl01316 656024002893 Integrase core domain; Region: rve_3; cl15866 656024002894 Helix-turn-helix domains; Region: HTH; cl00088 656024002895 Winged helix-turn helix; Region: HTH_29; pfam13551 656024002896 Helix-turn-helix domains; Region: HTH; cl00088 656024002897 Helix-turn-helix domains; Region: HTH; cl00088 656024002898 Winged helix-turn helix; Region: HTH_29; pfam13551 656024002899 Helix-turn-helix domains; Region: HTH; cl00088 656024002900 Integrase core domain; Region: rve; cl01316 656024002901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024002902 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 656024002903 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 656024002904 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 656024002905 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 656024002906 active site 656024002907 catalytic residues [active] 656024002908 Protein of unknown function (DUF690); Region: DUF690; cl04939 656024002909 Ubiquitin-like proteins; Region: UBQ; cl00155 656024002910 Ubiquitin-like proteins; Region: UBQ; cl00155 656024002911 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 656024002912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002913 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 656024002914 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002916 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 656024002917 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 656024002918 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 656024002919 dimerization interface [polypeptide binding]; other site 656024002920 ligand binding site [chemical binding]; other site 656024002921 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 656024002922 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 656024002923 TM-ABC transporter signature motif; other site 656024002924 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 656024002925 TM-ABC transporter signature motif; other site 656024002926 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 656024002927 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 656024002928 Walker A/P-loop; other site 656024002929 ATP binding site [chemical binding]; other site 656024002930 Q-loop/lid; other site 656024002931 ABC transporter signature motif; other site 656024002932 Walker B; other site 656024002933 D-loop; other site 656024002934 H-loop/switch region; other site 656024002935 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 656024002936 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 656024002937 Walker A/P-loop; other site 656024002938 ATP binding site [chemical binding]; other site 656024002939 Q-loop/lid; other site 656024002940 ABC transporter signature motif; other site 656024002941 Walker B; other site 656024002942 D-loop; other site 656024002943 H-loop/switch region; other site 656024002944 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 656024002945 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 656024002946 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024002947 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 656024002948 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 656024002949 metal ion-dependent adhesion site (MIDAS); other site 656024002950 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 656024002951 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024002952 active site 656024002953 ATP binding site [chemical binding]; other site 656024002954 substrate binding site [chemical binding]; other site 656024002955 activation loop (A-loop); other site 656024002956 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 656024002957 metal ion-dependent adhesion site (MIDAS); other site 656024002958 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 656024002959 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024002960 substrate binding site [chemical binding]; other site 656024002961 activation loop (A-loop); other site 656024002962 Helix-turn-helix domains; Region: HTH; cl00088 656024002963 putative transposase OrfB; Reviewed; Region: PHA02517 656024002964 HTH-like domain; Region: HTH_21; pfam13276 656024002965 Integrase core domain; Region: rve; cl01316 656024002966 Integrase core domain; Region: rve_3; cl15866 656024002967 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 656024002968 Subunit I/III interface [polypeptide binding]; other site 656024002969 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 656024002970 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024002971 classical (c) SDRs; Region: SDR_c; cd05233 656024002972 NAD(P) binding site [chemical binding]; other site 656024002973 active site 656024002974 Permease; Region: Permease; cl00510 656024002975 Permease; Region: Permease; cl00510 656024002976 Helix-turn-helix domains; Region: HTH; cl00088 656024002977 Winged helix-turn helix; Region: HTH_29; pfam13551 656024002978 Helix-turn-helix domains; Region: HTH; cl00088 656024002979 Integrase core domain; Region: rve; cl01316 656024002980 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024002981 Glycerate kinase family; Region: Gly_kinase; cl00841 656024002982 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 656024002983 active site 656024002984 catalytic triad [active] 656024002985 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 656024002986 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 656024002987 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 656024002988 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 656024002989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002990 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 656024002991 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 656024002992 Malic enzyme, N-terminal domain; Region: malic; pfam00390 656024002993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024002994 NAD(P) binding pocket [chemical binding]; other site 656024002995 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 656024002996 putative dimer interface [polypeptide binding]; other site 656024002997 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 656024002998 ThiS interaction site; other site 656024002999 putative active site [active] 656024003000 tetramer interface [polypeptide binding]; other site 656024003001 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 656024003002 thiS-thiF/thiG interaction site; other site 656024003003 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 656024003004 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024003005 active site 656024003006 ATP binding site [chemical binding]; other site 656024003007 substrate binding site [chemical binding]; other site 656024003008 activation loop (A-loop); other site 656024003009 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 656024003010 NodB motif; other site 656024003011 putative active site [active] 656024003012 putative catalytic site [active] 656024003013 putative Zn binding site [ion binding]; other site 656024003014 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024003015 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024003016 NAD(P) binding site [chemical binding]; other site 656024003017 catalytic residues [active] 656024003018 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024003019 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 656024003020 active site 656024003021 phosphorylation site [posttranslational modification] 656024003022 intermolecular recognition site; other site 656024003023 dimerization interface [polypeptide binding]; other site 656024003024 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 656024003025 DNA binding residues [nucleotide binding] 656024003026 dimerization interface [polypeptide binding]; other site 656024003027 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 656024003028 Domain of unknown function DUF21; Region: DUF21; pfam01595 656024003029 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 656024003030 Transporter associated domain; Region: CorC_HlyC; cl08393 656024003031 Domain of unknown function DUF21; Region: DUF21; pfam01595 656024003032 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 656024003033 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 656024003034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003035 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 656024003036 putative active site [active] 656024003037 putative substrate binding site [chemical binding]; other site 656024003038 catalytic site [active] 656024003039 dimer interface [polypeptide binding]; other site 656024003040 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 656024003041 dinuclear metal binding motif [ion binding]; other site 656024003042 Pirin-related protein [General function prediction only]; Region: COG1741 656024003043 Cupin domain; Region: Cupin_2; cl09118 656024003044 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 656024003045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024003046 metal binding site [ion binding]; metal-binding site 656024003047 active site 656024003048 I-site; other site 656024003049 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 656024003050 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024003051 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 656024003052 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 656024003053 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024003054 catalytic residue [active] 656024003055 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 656024003056 chaperone protein DnaJ; Provisional; Region: PRK14290 656024003057 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 656024003058 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 656024003059 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 656024003060 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 656024003061 ATP binding site [chemical binding]; other site 656024003062 putative Mg++ binding site [ion binding]; other site 656024003063 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 656024003064 nucleotide binding region [chemical binding]; other site 656024003065 ATP-binding site [chemical binding]; other site 656024003066 RQC domain; Region: RQC; cl09632 656024003067 HRDC domain; Region: HRDC; cl02578 656024003068 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 656024003069 active site 656024003070 metal binding site [ion binding]; metal-binding site 656024003071 Helix-turn-helix domains; Region: HTH; cl00088 656024003072 WYL domain; Region: WYL; cl14852 656024003073 WYL domain; Region: WYL; cl14852 656024003074 Domain of unknown function (DUF955); Region: DUF955; cl01076 656024003075 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024003076 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024003077 active site 656024003078 ATP binding site [chemical binding]; other site 656024003079 substrate binding site [chemical binding]; other site 656024003080 activation loop (A-loop); other site 656024003081 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; cd00200 656024003082 structural tetrad; other site 656024003083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 656024003084 Coenzyme A binding pocket [chemical binding]; other site 656024003085 Helix-turn-helix domains; Region: HTH; cl00088 656024003086 putative transposase OrfB; Reviewed; Region: PHA02517 656024003087 HTH-like domain; Region: HTH_21; pfam13276 656024003088 Integrase core domain; Region: rve; cl01316 656024003089 Integrase core domain; Region: rve_3; cl15866 656024003090 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 656024003091 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 656024003092 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 656024003093 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 656024003094 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 656024003095 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 656024003096 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024003097 nudix motif; other site 656024003098 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024003099 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 656024003100 dimer interface [polypeptide binding]; other site 656024003101 ssDNA binding site [nucleotide binding]; other site 656024003102 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024003103 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 656024003104 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 656024003105 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 656024003106 ABC transporter; Region: ABC_tran_2; pfam12848 656024003107 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 656024003108 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 656024003109 apolar tunnel; other site 656024003110 heme binding site [chemical binding]; other site 656024003111 dimerization interface [polypeptide binding]; other site 656024003112 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins; Region: AmyAc_OligoGlu_TS; cd11332 656024003113 active site 656024003114 catalytic site [active] 656024003115 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 656024003116 GAF domain; Region: GAF; cl15785 656024003117 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 656024003118 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 656024003119 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 656024003120 active site 656024003121 Mechanosensitive ion channel; Region: MS_channel; pfam00924 656024003122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024003123 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 656024003124 active site 656024003125 phosphorylation site [posttranslational modification] 656024003126 intermolecular recognition site; other site 656024003127 dimerization interface [polypeptide binding]; other site 656024003128 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 656024003129 DNA binding site [nucleotide binding] 656024003130 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 656024003131 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 656024003132 dimer interface [polypeptide binding]; other site 656024003133 phosphorylation site [posttranslational modification] 656024003134 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 656024003135 ATP binding site [chemical binding]; other site 656024003136 Mg2+ binding site [ion binding]; other site 656024003137 G-X-G motif; other site 656024003138 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 656024003139 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 656024003140 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 656024003141 Repair protein; Region: Repair_PSII; cl01535 656024003142 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 656024003143 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 656024003144 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 656024003145 putative active site [active] 656024003146 homotetrameric interface [polypeptide binding]; other site 656024003147 metal binding site [ion binding]; metal-binding site 656024003148 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 656024003149 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 656024003150 Zn binding site [ion binding]; other site 656024003151 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 656024003152 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 656024003153 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 656024003154 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 656024003155 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 656024003156 active site 656024003157 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 656024003158 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024003159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 656024003160 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024003161 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 656024003162 Walker A/P-loop; other site 656024003163 ATP binding site [chemical binding]; other site 656024003164 Q-loop/lid; other site 656024003165 ABC transporter signature motif; other site 656024003166 Walker B; other site 656024003167 D-loop; other site 656024003168 H-loop/switch region; other site 656024003169 UTRA domain; Region: UTRA; cl01230 656024003170 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024003171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003172 Walker A/P-loop; other site 656024003173 ATP binding site [chemical binding]; other site 656024003174 Q-loop/lid; other site 656024003175 ABC transporter signature motif; other site 656024003176 Walker B; other site 656024003177 D-loop; other site 656024003178 H-loop/switch region; other site 656024003179 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 656024003180 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 656024003181 putative dimer interface [polypeptide binding]; other site 656024003182 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 656024003183 putative phosphate binding site [ion binding]; other site 656024003184 putative catalytic site [active] 656024003185 active site 656024003186 metal binding site A [ion binding]; metal-binding site 656024003187 DNA binding site [nucleotide binding] 656024003188 putative AP binding site [nucleotide binding]; other site 656024003189 putative metal binding site B [ion binding]; other site 656024003190 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 656024003191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003192 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 656024003193 nucleotide binding region [chemical binding]; other site 656024003194 ATP-binding site [chemical binding]; other site 656024003195 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 656024003196 trigger factor; Provisional; Region: tig; PRK01490 656024003197 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 656024003198 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 656024003199 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 656024003200 Clp protease; Region: CLP_protease; pfam00574 656024003201 oligomer interface [polypeptide binding]; other site 656024003202 active site residues [active] 656024003203 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 656024003204 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 656024003205 oligomer interface [polypeptide binding]; other site 656024003206 active site residues [active] 656024003207 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 656024003208 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 656024003209 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 656024003210 Walker A motif; other site 656024003211 ATP binding site [chemical binding]; other site 656024003212 Walker B motif; other site 656024003213 arginine finger; other site 656024003214 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 656024003215 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 656024003216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024003217 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 656024003218 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 656024003219 active site 656024003220 multimer interface [polypeptide binding]; other site 656024003221 rod shape-determining protein MreB; Provisional; Region: PRK13927 656024003222 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 656024003223 ATP binding site [chemical binding]; other site 656024003224 profilin binding site; other site 656024003225 rod shape-determining protein MreC; Provisional; Region: PRK13922 656024003226 rod shape-determining protein MreC; Region: MreC; pfam04085 656024003227 rod shape-determining protein MreD; Region: MreD; cl01087 656024003228 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 656024003229 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 656024003230 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024003231 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 656024003232 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 656024003233 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 656024003234 B12 binding site [chemical binding]; other site 656024003235 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 656024003236 FeS/SAM binding site; other site 656024003237 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 656024003238 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 656024003239 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 656024003240 homodimer interface [polypeptide binding]; other site 656024003241 oligonucleotide binding site [chemical binding]; other site 656024003242 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 656024003243 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 656024003244 GTPase CgtA; Reviewed; Region: obgE; PRK12296 656024003245 GTP1/OBG; Region: GTP1_OBG; pfam01018 656024003246 Obg GTPase; Region: Obg; cd01898 656024003247 G1 box; other site 656024003248 GTP/Mg2+ binding site [chemical binding]; other site 656024003249 Switch I region; other site 656024003250 G2 box; other site 656024003251 G3 box; other site 656024003252 Switch II region; other site 656024003253 G4 box; other site 656024003254 G5 box; other site 656024003255 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 656024003256 gamma-glutamyl kinase; Provisional; Region: PRK05429 656024003257 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 656024003258 nucleotide binding site [chemical binding]; other site 656024003259 homotetrameric interface [polypeptide binding]; other site 656024003260 putative phosphate binding site [ion binding]; other site 656024003261 putative allosteric binding site; other site 656024003262 PUA domain; Region: PUA; cl00607 656024003263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003264 Walker A/P-loop; other site 656024003265 ATP binding site [chemical binding]; other site 656024003266 Q-loop/lid; other site 656024003267 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 656024003268 ABC transporter signature motif; other site 656024003269 Walker B; other site 656024003270 D-loop; other site 656024003271 H-loop/switch region; other site 656024003272 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024003273 active site 656024003274 metal binding site [ion binding]; metal-binding site 656024003275 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024003276 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 656024003277 putative catalytic cysteine [active] 656024003278 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 656024003279 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 656024003280 DXD motif; other site 656024003281 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 656024003282 Kelch motif; Region: Kelch_1; cl02701 656024003283 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 656024003284 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 656024003285 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 656024003286 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 656024003287 Cu(I) binding site [ion binding]; other site 656024003288 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 656024003289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003290 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 656024003291 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 656024003292 Walker A motif; other site 656024003293 ATP binding site [chemical binding]; other site 656024003294 Walker B motif; other site 656024003295 arginine finger; other site 656024003296 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 656024003297 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 656024003298 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 656024003299 phosphoglucomutase; Validated; Region: PRK07564 656024003300 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 656024003301 active site 656024003302 substrate binding site [chemical binding]; other site 656024003303 metal binding site [ion binding]; metal-binding site 656024003304 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 656024003305 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 656024003306 active site 656024003307 (T/H)XGH motif; other site 656024003308 Oligomerisation domain; Region: Oligomerisation; cl00519 656024003309 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 656024003310 catalytic core [active] 656024003311 Helix-turn-helix domains; Region: HTH; cl00088 656024003312 putative transposase OrfB; Reviewed; Region: PHA02517 656024003313 HTH-like domain; Region: HTH_21; pfam13276 656024003314 Integrase core domain; Region: rve; cl01316 656024003315 Integrase core domain; Region: rve_3; cl15866 656024003316 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 656024003317 putative active site [active] 656024003318 putative catalytic site [active] 656024003319 Helix-turn-helix domains; Region: HTH; cl00088 656024003320 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 656024003321 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003322 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003323 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 656024003324 NodB motif; other site 656024003325 active site 656024003326 catalytic site [active] 656024003327 metal binding site [ion binding]; metal-binding site 656024003328 Bacitracin resistance protein BacA; Region: BacA; cl00858 656024003329 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 656024003330 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 656024003331 active site 656024003332 phosphorylation site [posttranslational modification] 656024003333 intermolecular recognition site; other site 656024003334 dimerization interface [polypeptide binding]; other site 656024003335 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 656024003336 DNA binding site [nucleotide binding] 656024003337 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 656024003338 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 656024003339 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 656024003340 Mg2+ binding site [ion binding]; other site 656024003341 G-X-G motif; other site 656024003342 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003343 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003344 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003345 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024003346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024003347 Helix-turn-helix domains; Region: HTH; cl00088 656024003348 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 656024003349 classical (c) SDRs; Region: SDR_c; cd05233 656024003350 NAD(P) binding site [chemical binding]; other site 656024003351 active site 656024003352 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024003353 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 656024003354 active site 656024003355 catalytic tetrad [active] 656024003356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 656024003357 Helix-turn-helix domains; Region: HTH; cl00088 656024003358 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 656024003359 putative dimerization interface [polypeptide binding]; other site 656024003360 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 656024003361 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024003362 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024003363 Helix-turn-helix domains; Region: HTH; cl00088 656024003364 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 656024003365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003366 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024003367 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 656024003368 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 656024003369 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 656024003370 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 656024003371 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 656024003372 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 656024003373 Walker A/P-loop; other site 656024003374 ATP binding site [chemical binding]; other site 656024003375 Q-loop/lid; other site 656024003376 ABC transporter signature motif; other site 656024003377 Walker B; other site 656024003378 D-loop; other site 656024003379 H-loop/switch region; other site 656024003380 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 656024003381 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 656024003382 TM-ABC transporter signature motif; other site 656024003383 Transcriptional regulators [Transcription]; Region: FadR; COG2186 656024003384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024003385 DNA-binding site [nucleotide binding]; DNA binding site 656024003386 FCD domain; Region: FCD; cl11656 656024003387 short chain dehydrogenase; Validated; Region: PRK06182 656024003388 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 656024003389 NADP binding site [chemical binding]; other site 656024003390 active site 656024003391 steroid binding site; other site 656024003392 PAC2 family; Region: PAC2; cl00847 656024003393 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 656024003394 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 656024003395 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 656024003396 XdhC Rossmann domain; Region: XdhC_C; pfam13478 656024003397 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 656024003398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003399 Family description; Region: UvrD_C_2; cl15862 656024003400 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 656024003401 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 656024003402 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 656024003403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003404 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 656024003405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003406 Transcriptional regulators [Transcription]; Region: FadR; COG2186 656024003407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024003408 DNA-binding site [nucleotide binding]; DNA binding site 656024003409 FCD domain; Region: FCD; cl11656 656024003410 Winged helix-turn helix; Region: HTH_29; pfam13551 656024003411 Integrase core domain; Region: rve; cl01316 656024003412 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 656024003413 putative acyl-acceptor binding pocket; other site 656024003414 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 656024003415 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 656024003416 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024003417 YceI-like domain; Region: YceI; cl01001 656024003418 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 656024003419 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024003420 putative substrate translocation pore; other site 656024003421 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 656024003422 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 656024003423 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 656024003424 Competence protein; Region: Competence; cl00471 656024003425 hypothetical protein; Reviewed; Region: PRK07914 656024003426 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 656024003427 GTP-binding protein LepA; Provisional; Region: PRK05433 656024003428 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 656024003429 G1 box; other site 656024003430 putative GEF interaction site [polypeptide binding]; other site 656024003431 GTP/Mg2+ binding site [chemical binding]; other site 656024003432 Switch I region; other site 656024003433 G2 box; other site 656024003434 G3 box; other site 656024003435 Switch II region; other site 656024003436 G4 box; other site 656024003437 G5 box; other site 656024003438 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 656024003439 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 656024003440 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 656024003441 coproporphyrinogen III oxidase; Validated; Region: PRK05628 656024003442 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 656024003443 FeS/SAM binding site; other site 656024003444 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 656024003445 Helix-turn-helix domains; Region: HTH; cl00088 656024003446 HrcA protein C terminal domain; Region: HrcA; pfam01628 656024003447 chaperone protein DnaJ; Provisional; Region: PRK14278 656024003448 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 656024003449 HSP70 interaction site [polypeptide binding]; other site 656024003450 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 656024003451 Zn binding sites [ion binding]; other site 656024003452 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 656024003453 dimer interface [polypeptide binding]; other site 656024003454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 656024003455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 656024003456 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 656024003457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003458 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 656024003459 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 656024003460 Domain of unknown function DUF21; Region: DUF21; pfam01595 656024003461 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 656024003462 Transporter associated domain; Region: CorC_HlyC; cl08393 656024003463 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 656024003464 GTPase Era; Reviewed; Region: era; PRK00089 656024003465 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 656024003466 G1 box; other site 656024003467 GTP/Mg2+ binding site [chemical binding]; other site 656024003468 Switch I region; other site 656024003469 G2 box; other site 656024003470 Switch II region; other site 656024003471 G3 box; other site 656024003472 G4 box; other site 656024003473 G5 box; other site 656024003474 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 656024003475 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024003476 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 656024003477 active site 656024003478 metal binding site [ion binding]; metal-binding site 656024003479 TIR domain; Region: TIR_2; cl15770 656024003480 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 656024003481 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 656024003482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003483 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 656024003484 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024003485 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 656024003486 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024003487 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024003488 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 656024003489 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024003490 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; cd00200 656024003491 structural tetrad; other site 656024003492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024003493 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 656024003494 Recombination protein O N terminal; Region: RecO_N; cl15812 656024003495 Recombination protein O C terminal; Region: RecO_C; pfam02565 656024003496 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 656024003497 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 656024003498 catalytic residue [active] 656024003499 putative FPP diphosphate binding site; other site 656024003500 putative FPP binding hydrophobic cleft; other site 656024003501 dimer interface [polypeptide binding]; other site 656024003502 putative IPP diphosphate binding site; other site 656024003503 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024003504 glycyl-tRNA synthetase; Provisional; Region: PRK04173 656024003505 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 656024003506 dimer interface [polypeptide binding]; other site 656024003507 active site 656024003508 motif 2; other site 656024003509 motif 3; other site 656024003510 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 656024003511 anticodon binding site; other site 656024003512 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 656024003513 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 656024003514 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 656024003515 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 656024003516 pyruvate phosphate dikinase; Provisional; Region: PRK09279 656024003517 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 656024003518 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 656024003519 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 656024003520 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 656024003521 putative active site [active] 656024003522 transketolase; Reviewed; Region: PRK05899 656024003523 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 656024003524 TPP-binding site [chemical binding]; other site 656024003525 dimer interface [polypeptide binding]; other site 656024003526 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 656024003527 PYR/PP interface [polypeptide binding]; other site 656024003528 dimer interface [polypeptide binding]; other site 656024003529 TPP binding site [chemical binding]; other site 656024003530 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 656024003531 Bacterial PH domain; Region: DUF304; cl01348 656024003532 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 656024003533 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024003534 DNA primase; Validated; Region: dnaG; PRK05667 656024003535 CHC2 zinc finger; Region: zf-CHC2; cl15369 656024003536 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 656024003537 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 656024003538 active site 656024003539 metal binding site [ion binding]; metal-binding site 656024003540 interdomain interaction site; other site 656024003541 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 656024003542 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 656024003543 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 656024003544 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 656024003545 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 656024003546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024003547 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 656024003548 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 656024003549 DNA binding residues [nucleotide binding] 656024003550 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_5; cd05830 656024003551 active site 656024003552 catalytic site [active] 656024003553 Integrase core domain; Region: rve; cl01316 656024003554 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 656024003555 Transposase; Region: HTH_Tnp_Tc3_2; pfam01498 656024003556 DDE superfamily endonuclease; Region: DDE_5; cl02413 656024003557 putative transposase OrfB; Reviewed; Region: PHA02517 656024003558 HTH-like domain; Region: HTH_21; pfam13276 656024003559 Integrase core domain; Region: rve; cl01316 656024003560 Integrase core domain; Region: rve_3; cl15866 656024003561 Helix-turn-helix domains; Region: HTH; cl00088 656024003562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003563 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 656024003564 Walker A/P-loop; other site 656024003565 ATP binding site [chemical binding]; other site 656024003566 Q-loop/lid; other site 656024003567 ABC transporter signature motif; other site 656024003568 Walker B; other site 656024003569 D-loop; other site 656024003570 H-loop/switch region; other site 656024003571 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024003572 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024003573 Integrase core domain; Region: rve; cl01316 656024003574 Winged helix-turn helix; Region: HTH_29; pfam13551 656024003575 Helix-turn-helix domains; Region: HTH; cl00088 656024003576 Helix-turn-helix domains; Region: HTH; cl00088 656024003577 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14603 656024003578 Rhodopirellula transposase DDE domain; Region: DDE_Tnp_ISAZ013; pfam07592 656024003579 Helix-turn-helix domains; Region: HTH; cl00088 656024003580 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 656024003581 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024003582 putative active site [active] 656024003583 putative NTP binding site [chemical binding]; other site 656024003584 putative nucleic acid binding site [nucleotide binding]; other site 656024003585 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 656024003586 HTH-like domain; Region: HTH_21; pfam13276 656024003587 Integrase core domain; Region: rve; cl01316 656024003588 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024003589 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024003590 putative active site [active] 656024003591 putative NTP binding site [chemical binding]; other site 656024003592 putative nucleic acid binding site [nucleotide binding]; other site 656024003593 Type II intron maturase; Region: Intron_maturas2; pfam01348 656024003594 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024003595 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024003596 putative active site [active] 656024003597 putative NTP binding site [chemical binding]; other site 656024003598 putative nucleic acid binding site [nucleotide binding]; other site 656024003599 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 656024003600 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 656024003601 S-adenosylmethionine binding site [chemical binding]; other site 656024003602 putative transposase OrfB; Reviewed; Region: PHA02517 656024003603 Integrase core domain; Region: rve_3; cl15866 656024003604 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 656024003605 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 656024003606 putative metal binding site; other site 656024003607 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 656024003608 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 656024003609 Uncharacterized conserved protein [Function unknown]; Region: COG2006 656024003610 Uncharacterized conserved protein [Function unknown]; Region: COG2006 656024003611 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 656024003612 S-adenosylmethionine binding site [chemical binding]; other site 656024003613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003617 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 656024003618 Helix-turn-helix domains; Region: HTH; cl00088 656024003619 putative transposase OrfB; Reviewed; Region: PHA02517 656024003620 HTH-like domain; Region: HTH_21; pfam13276 656024003621 Integrase core domain; Region: rve; cl01316 656024003622 Integrase core domain; Region: rve_3; cl15866 656024003623 Helix-turn-helix domains; Region: HTH; cl00088 656024003624 Winged helix-turn helix; Region: HTH_29; pfam13551 656024003625 Helix-turn-helix domains; Region: HTH; cl00088 656024003626 Integrase core domain; Region: rve; cl01316 656024003627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024003628 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024003629 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 656024003630 putative NAD(P) binding site [chemical binding]; other site 656024003631 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 656024003632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003633 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 656024003634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003635 NAD(P) binding site [chemical binding]; other site 656024003636 active site 656024003637 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 656024003638 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 656024003639 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 656024003640 active site 656024003641 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 656024003642 homodimer interface [polypeptide binding]; other site 656024003643 Low molecular weight phosphatase family; Region: LMWPc; cl00105 656024003644 active site 656024003645 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 656024003646 Mg++ binding site [ion binding]; other site 656024003647 putative catalytic motif [active] 656024003648 putative substrate binding site [chemical binding]; other site 656024003649 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 656024003650 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 656024003651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003652 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 656024003653 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024003654 nudix motif; other site 656024003655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003656 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 656024003657 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 656024003658 Phosphoglycerate kinase; Region: PGK; pfam00162 656024003659 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 656024003660 substrate binding site [chemical binding]; other site 656024003661 hinge regions; other site 656024003662 ADP binding site [chemical binding]; other site 656024003663 catalytic site [active] 656024003664 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 656024003665 substrate binding site [chemical binding]; other site 656024003666 dimer interface [polypeptide binding]; other site 656024003667 catalytic triad [active] 656024003668 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 656024003669 peptide binding site [polypeptide binding]; other site 656024003670 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024003671 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 656024003672 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 656024003673 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 656024003674 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 656024003675 active site 656024003676 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 656024003677 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 656024003678 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 656024003679 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 656024003680 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 656024003681 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 656024003682 putative active site [active] 656024003683 transaldolase; Provisional; Region: PRK03903 656024003684 catalytic residue [active] 656024003685 UbiA prenyltransferase family; Region: UbiA; cl00337 656024003686 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 656024003687 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 656024003688 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024003689 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024003690 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 656024003691 Walker A/P-loop; other site 656024003692 ATP binding site [chemical binding]; other site 656024003693 Q-loop/lid; other site 656024003694 ABC transporter signature motif; other site 656024003695 Walker B; other site 656024003696 D-loop; other site 656024003697 H-loop/switch region; other site 656024003698 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 656024003699 putative DNA binding site [nucleotide binding]; other site 656024003700 dimerization interface [polypeptide binding]; other site 656024003701 Predicted transcriptional regulator [Transcription]; Region: COG2345 656024003702 putative Zn2+ binding site [ion binding]; other site 656024003703 FeS assembly protein SufB; Region: sufB; TIGR01980 656024003704 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 656024003705 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 656024003706 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 656024003707 [2Fe-2S] cluster binding site [ion binding]; other site 656024003708 FeS assembly ATPase SufC; Region: sufC; TIGR01978 656024003709 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 656024003710 Walker A/P-loop; other site 656024003711 ATP binding site [chemical binding]; other site 656024003712 Q-loop/lid; other site 656024003713 ABC transporter signature motif; other site 656024003714 Walker B; other site 656024003715 D-loop; other site 656024003716 H-loop/switch region; other site 656024003717 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 656024003718 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 656024003719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024003720 catalytic residue [active] 656024003721 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 656024003722 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 656024003723 trimerization site [polypeptide binding]; other site 656024003724 active site 656024003725 Domain of unknown function DUF59; Region: DUF59; cl00941 656024003726 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024003727 putative active site [active] 656024003728 Possible enoyl reductase; Region: MDR_enoyl_red; cd08244 656024003729 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024003730 putative NAD(P) binding site [chemical binding]; other site 656024003731 Helix-turn-helix domains; Region: HTH; cl00088 656024003732 putative transposase OrfB; Reviewed; Region: PHA02517 656024003733 HTH-like domain; Region: HTH_21; pfam13276 656024003734 Integrase core domain; Region: rve; cl01316 656024003735 Integrase core domain; Region: rve_3; cl15866 656024003736 Excalibur calcium-binding domain; Region: Excalibur; cl05460 656024003737 putative transposase OrfB; Reviewed; Region: PHA02517 656024003738 HTH-like domain; Region: HTH_21; pfam13276 656024003739 Integrase core domain; Region: rve; cl01316 656024003740 Integrase core domain; Region: rve_3; cl15866 656024003741 Helix-turn-helix domains; Region: HTH; cl00088 656024003742 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 656024003743 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 656024003744 NAD binding site [chemical binding]; other site 656024003745 substrate binding site [chemical binding]; other site 656024003746 homodimer interface [polypeptide binding]; other site 656024003747 active site 656024003748 Helix-turn-helix domains; Region: HTH; cl00088 656024003749 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 656024003750 dimerization interface [polypeptide binding]; other site 656024003751 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 656024003752 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 656024003753 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024003754 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 656024003755 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 656024003756 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 656024003757 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024003758 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024003759 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 656024003760 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 656024003761 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 656024003762 ABC-ATPase subunit interface; other site 656024003763 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 656024003764 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 656024003765 Walker A/P-loop; other site 656024003766 ATP binding site [chemical binding]; other site 656024003767 Q-loop/lid; other site 656024003768 ABC transporter signature motif; other site 656024003769 Walker B; other site 656024003770 D-loop; other site 656024003771 H-loop/switch region; other site 656024003772 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 656024003773 Walker A/P-loop; other site 656024003774 ATP binding site [chemical binding]; other site 656024003775 Q-loop/lid; other site 656024003776 ABC transporter signature motif; other site 656024003777 Walker B; other site 656024003778 D-loop; other site 656024003779 H-loop/switch region; other site 656024003780 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 656024003781 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 656024003782 active site residue [active] 656024003783 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 656024003784 active site residue [active] 656024003785 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024003786 putative active site [active] 656024003787 Helix-turn-helix domains; Region: HTH; cl00088 656024003788 putative transposase OrfB; Reviewed; Region: PHA02517 656024003789 HTH-like domain; Region: HTH_21; pfam13276 656024003790 Integrase core domain; Region: rve; cl01316 656024003791 Integrase core domain; Region: rve_3; cl15866 656024003792 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 656024003793 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 656024003794 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 656024003795 Uncharacterized conserved protein [Function unknown]; Region: COG2308 656024003796 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 656024003797 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 656024003798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003799 Walker A/P-loop; other site 656024003800 ATP binding site [chemical binding]; other site 656024003801 Q-loop/lid; other site 656024003802 ABC transporter signature motif; other site 656024003803 Walker B; other site 656024003804 D-loop; other site 656024003805 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 656024003806 Cation efflux family; Region: Cation_efflux; cl00316 656024003807 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 656024003808 trimer interface [polypeptide binding]; other site 656024003809 oxyanion hole (OAH) forming residues; other site 656024003810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024003811 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024003812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003813 Walker A/P-loop; other site 656024003814 ATP binding site [chemical binding]; other site 656024003815 Q-loop/lid; other site 656024003816 ABC transporter signature motif; other site 656024003817 Walker B; other site 656024003818 D-loop; other site 656024003819 H-loop/switch region; other site 656024003820 Helix-turn-helix domains; Region: HTH; cl00088 656024003821 Winged helix-turn helix; Region: HTH_29; pfam13551 656024003822 Helix-turn-helix domains; Region: HTH; cl00088 656024003823 Integrase core domain; Region: rve; cl01316 656024003824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024003825 pyruvate kinase; Provisional; Region: PRK06247 656024003826 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 656024003827 domain interfaces; other site 656024003828 active site 656024003829 hydroxyglutarate oxidase; Provisional; Region: PRK11728 656024003830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003831 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 656024003832 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 656024003833 Helix-turn-helix domains; Region: HTH; cl00088 656024003834 Winged helix-turn helix; Region: HTH_29; pfam13551 656024003835 Helix-turn-helix domains; Region: HTH; cl00088 656024003836 Integrase core domain; Region: rve; cl01316 656024003837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024003838 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 656024003839 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 656024003840 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 656024003841 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 656024003842 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 656024003843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003844 NAD(P) binding site [chemical binding]; other site 656024003845 active site 656024003846 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 656024003847 short chain dehydrogenase; Provisional; Region: PRK07856 656024003848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003849 NAD(P) binding site [chemical binding]; other site 656024003850 active site 656024003851 ferrochelatase; Reviewed; Region: hemH; PRK00035 656024003852 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 656024003853 C-terminal domain interface [polypeptide binding]; other site 656024003854 active site 656024003855 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 656024003856 active site 656024003857 N-terminal domain interface [polypeptide binding]; other site 656024003858 Protein of unknown function (DUF3090); Region: DUF3090; cl12832 656024003859 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 656024003860 active site 656024003861 catalytic triad [active] 656024003862 oxyanion hole [active] 656024003863 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 656024003864 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 656024003865 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 656024003866 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 656024003867 FAD binding domain; Region: FAD_binding_4; pfam01565 656024003868 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 656024003869 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 656024003870 ATP binding site [chemical binding]; other site 656024003871 Walker B motif; other site 656024003872 arginine finger; other site 656024003873 Peptidase family M41; Region: Peptidase_M41; pfam01434 656024003874 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 656024003875 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 656024003876 Uncharacterized conserved protein [Function unknown]; Region: COG1912 656024003877 urate oxidase; Region: urate_oxi; TIGR03383 656024003878 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 656024003879 active site 656024003880 Bacterial Ig-like domain; Region: Big_5; cl01012 656024003881 Bacterial Ig-like domain; Region: Big_5; cl01012 656024003882 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 656024003883 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024003884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003885 Walker A/P-loop; other site 656024003886 ATP binding site [chemical binding]; other site 656024003887 Q-loop/lid; other site 656024003888 ABC transporter signature motif; other site 656024003889 Walker B; other site 656024003890 D-loop; other site 656024003891 H-loop/switch region; other site 656024003892 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 656024003893 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024003894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003895 Walker A/P-loop; other site 656024003896 ATP binding site [chemical binding]; other site 656024003897 Q-loop/lid; other site 656024003898 ABC transporter signature motif; other site 656024003899 Walker B; other site 656024003900 D-loop; other site 656024003901 H-loop/switch region; other site 656024003902 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 656024003903 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 656024003904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024003905 mycothiol-dependent formaldehyde dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 656024003906 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 656024003907 NAD binding site [chemical binding]; other site 656024003908 catalytic Zn binding site [ion binding]; other site 656024003909 substrate binding site [chemical binding]; other site 656024003910 structural Zn binding site [ion binding]; other site 656024003911 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 656024003912 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 656024003913 P-loop; other site 656024003914 Magnesium ion binding site [ion binding]; other site 656024003915 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 656024003916 Magnesium ion binding site [ion binding]; other site 656024003917 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 656024003918 active site 656024003919 putative substrate binding region [chemical binding]; other site 656024003920 ScpA/B protein; Region: ScpA_ScpB; cl00598 656024003921 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 656024003922 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 656024003923 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 656024003924 active site 656024003925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024003926 prephenate dehydrogenase; Validated; Region: PRK06545 656024003927 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 656024003928 cytidylate kinase; Provisional; Region: cmk; PRK00023 656024003929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024003930 active site 656024003931 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 656024003932 CMP-binding site; other site 656024003933 The sites determining sugar specificity; other site 656024003934 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 656024003935 putative acyl-acceptor binding pocket; other site 656024003936 GTP-binding protein Der; Reviewed; Region: PRK03003 656024003937 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 656024003938 G1 box; other site 656024003939 GTP/Mg2+ binding site [chemical binding]; other site 656024003940 Switch I region; other site 656024003941 G2 box; other site 656024003942 Switch II region; other site 656024003943 G3 box; other site 656024003944 G4 box; other site 656024003945 G5 box; other site 656024003946 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 656024003947 G1 box; other site 656024003948 GTP/Mg2+ binding site [chemical binding]; other site 656024003949 Switch I region; other site 656024003950 G2 box; other site 656024003951 G3 box; other site 656024003952 Switch II region; other site 656024003953 G4 box; other site 656024003954 G5 box; other site 656024003955 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 656024003956 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024003957 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 656024003958 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 656024003959 active site 656024003960 putative catalytic site [active] 656024003961 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 656024003962 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024003963 active site 656024003964 HIGH motif; other site 656024003965 nucleotide binding site [chemical binding]; other site 656024003966 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024003967 active site 656024003968 KMSKS motif; other site 656024003969 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 656024003970 tRNA binding surface [nucleotide binding]; other site 656024003971 anticodon binding site; other site 656024003972 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 656024003973 active site 656024003974 dimerization interface [polypeptide binding]; other site 656024003975 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 656024003976 trimer interface [polypeptide binding]; other site 656024003977 putative metal binding site [ion binding]; other site 656024003978 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 656024003979 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 656024003980 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 656024003981 trimer interface [polypeptide binding]; other site 656024003982 active site 656024003983 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 656024003984 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 656024003985 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 656024003986 TRAM domain; Region: TRAM; cl01282 656024003987 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; cl15754 656024003988 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 656024003989 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 656024003990 TPP-binding site; other site 656024003991 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 656024003992 PYR/PP interface [polypeptide binding]; other site 656024003993 dimer interface [polypeptide binding]; other site 656024003994 TPP binding site [chemical binding]; other site 656024003995 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 656024003996 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 656024003997 putative hydrophobic ligand binding site [chemical binding]; other site 656024003998 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024003999 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 656024004000 substrate binding site [chemical binding]; other site 656024004001 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 656024004002 oxyanion hole (OAH) forming residues; other site 656024004003 trimer interface [polypeptide binding]; other site 656024004004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004005 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 656024004006 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 656024004007 dimer interface [polypeptide binding]; other site 656024004008 active site 656024004009 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 656024004010 putative active site [active] 656024004011 catalytic site [active] 656024004012 putative substrate binding site [chemical binding]; other site 656024004013 HRDC domain; Region: HRDC; cl02578 656024004014 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 656024004015 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 656024004016 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 656024004017 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 656024004018 substrate binding site [chemical binding]; other site 656024004019 active site 656024004020 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 656024004021 Chlorite dismutase; Region: Chlor_dismutase; cl01280 656024004022 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 656024004023 S-adenosylmethionine binding site [chemical binding]; other site 656024004024 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 656024004025 transmembrane helices; other site 656024004026 potential frameshift: common BLAST hit: gi|315505761|ref|YP_004084648.1| WD40 repeat-containing protein 656024004027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024004028 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 656024004029 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 656024004030 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024004031 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; cd00200 656024004032 structural tetrad; other site 656024004033 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; cd00200 656024004034 structural tetrad; other site 656024004035 FOG: WD40 repeat [General function prediction only]; Region: COG2319 656024004036 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; cd00200 656024004037 structural tetrad; other site 656024004038 TIR domain; Region: TIR_2; cl15770 656024004039 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 656024004040 TIR domain; Region: TIR_2; cl15770 656024004041 TIR domain; Region: TIR_2; cl15770 656024004042 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 656024004043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024004044 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 656024004045 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 656024004046 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; cd00200 656024004047 structural tetrad; other site 656024004048 FOG: WD40 repeat [General function prediction only]; Region: COG2319 656024004049 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; cd00200 656024004050 structural tetrad; other site 656024004051 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 656024004052 structural tetrad; other site 656024004053 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024004054 substrate binding site [chemical binding]; other site 656024004055 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024004056 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024004057 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004058 Integrase core domain; Region: rve; cl01316 656024004059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024004060 classical (c) SDRs; Region: SDR_c; cd05233 656024004061 NAD(P) binding site [chemical binding]; other site 656024004062 active site 656024004063 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024004064 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 656024004065 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 656024004066 ligand-binding site [chemical binding]; other site 656024004067 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 656024004068 active site 656024004069 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 656024004070 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 656024004071 Active Sites [active] 656024004072 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 656024004073 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 656024004074 CysD dimerization site [polypeptide binding]; other site 656024004075 G1 box; other site 656024004076 putative GEF interaction site [polypeptide binding]; other site 656024004077 GTP/Mg2+ binding site [chemical binding]; other site 656024004078 Switch I region; other site 656024004079 G2 box; other site 656024004080 G3 box; other site 656024004081 Switch II region; other site 656024004082 G4 box; other site 656024004083 G5 box; other site 656024004084 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 656024004085 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 656024004086 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 656024004087 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 656024004088 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 656024004089 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 656024004090 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 656024004091 catalytic site [active] 656024004092 active site 656024004093 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 656024004094 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 656024004095 catalytic core [active] 656024004096 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 656024004097 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 656024004098 dimer interface [polypeptide binding]; other site 656024004099 conserved gate region; other site 656024004100 putative PBP binding loops; other site 656024004101 ABC-ATPase subunit interface; other site 656024004102 NMT1-like family; Region: NMT1_2; cl15260 656024004103 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 656024004104 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 656024004105 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 656024004106 Walker A/P-loop; other site 656024004107 ATP binding site [chemical binding]; other site 656024004108 Q-loop/lid; other site 656024004109 ABC transporter signature motif; other site 656024004110 Walker B; other site 656024004111 D-loop; other site 656024004112 H-loop/switch region; other site 656024004113 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024004114 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 656024004115 active site 656024004116 catalytic tetrad [active] 656024004117 Protein of unknown function, DUF482; Region: DUF482; pfam04339 656024004118 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024004119 diaminopimelate decarboxylase; Region: lysA; TIGR01048 656024004120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 656024004121 active site 656024004122 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 656024004123 substrate binding site [chemical binding]; other site 656024004124 catalytic residues [active] 656024004125 dimer interface [polypeptide binding]; other site 656024004126 hypothetical protein; Provisional; Region: PRK07206 656024004127 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024004128 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 656024004129 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 656024004130 B12 binding site [chemical binding]; other site 656024004131 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 656024004132 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 656024004133 B12 binding site [chemical binding]; other site 656024004134 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004135 acyl-CoA synthetase; Validated; Region: PRK08308 656024004136 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004138 NAD(P) binding site [chemical binding]; other site 656024004139 active site 656024004140 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_cladeD; cd03379 656024004141 active site clefts [active] 656024004142 zinc binding site [ion binding]; other site 656024004143 dimer interface [polypeptide binding]; other site 656024004144 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024004145 dinuclear metal binding motif [ion binding]; other site 656024004146 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024004147 dinuclear metal binding motif [ion binding]; other site 656024004148 Helix-turn-helix domains; Region: HTH; cl00088 656024004149 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 656024004150 dimerization interface [polypeptide binding]; other site 656024004151 Integrase core domain; Region: rve; cl01316 656024004152 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 656024004153 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 656024004154 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 656024004155 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 656024004156 intersubunit interface [polypeptide binding]; other site 656024004157 H+ Antiporter protein; Region: 2A0121; TIGR00900 656024004158 enterobactin exporter EntS; Provisional; Region: PRK10489 656024004159 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 656024004160 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 656024004161 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 656024004162 YcaO-like family; Region: YcaO; pfam02624 656024004163 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 656024004164 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 656024004165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004166 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 656024004167 active site 656024004168 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 656024004169 putative FMN binding site [chemical binding]; other site 656024004170 NADPH bind site [chemical binding]; other site 656024004171 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 656024004172 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 656024004173 P-loop; other site 656024004174 YibE/F-like protein; Region: YibE_F; cl02259 656024004175 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024004176 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 656024004177 NAD(P) binding site [chemical binding]; other site 656024004178 catalytic residues [active] 656024004179 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 656024004180 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 656024004181 dimer interface [polypeptide binding]; other site 656024004182 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 656024004183 active site 656024004184 Fe binding site [ion binding]; other site 656024004185 Cupin domain; Region: Cupin_2; cl09118 656024004186 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 656024004187 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 656024004188 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 656024004189 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004190 Integrase core domain; Region: rve; cl01316 656024004191 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024004192 putative active site [active] 656024004193 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 656024004194 Cation transport protein; Region: TrkH; cl10514 656024004195 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 656024004196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004197 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 656024004198 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024004199 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024004200 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 656024004201 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024004202 Clp protease ATP binding subunit; Region: clpC; CHL00095 656024004203 Clp amino terminal domain; Region: Clp_N; pfam02861 656024004204 Clp amino terminal domain; Region: Clp_N; pfam02861 656024004205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024004206 Helix-turn-helix domains; Region: HTH; cl00088 656024004207 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 656024004208 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 656024004209 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 656024004210 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 656024004211 FMN-binding pocket [chemical binding]; other site 656024004212 flavin binding motif; other site 656024004213 phosphate binding motif [ion binding]; other site 656024004214 beta-alpha-beta structure motif; other site 656024004215 NAD binding pocket [chemical binding]; other site 656024004216 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 656024004217 catalytic loop [active] 656024004218 iron binding site [ion binding]; other site 656024004219 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 656024004220 active site 656024004221 short chain dehydrogenase; Validated; Region: PRK05855 656024004222 classical (c) SDRs; Region: SDR_c; cd05233 656024004223 NAD(P) binding site [chemical binding]; other site 656024004224 active site 656024004225 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_2; cd06216 656024004226 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 656024004227 FAD binding pocket [chemical binding]; other site 656024004228 FAD binding motif [chemical binding]; other site 656024004229 phosphate binding motif [ion binding]; other site 656024004230 beta-alpha-beta structure motif; other site 656024004231 NAD binding pocket [chemical binding]; other site 656024004232 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 656024004233 catalytic loop [active] 656024004234 iron binding site [ion binding]; other site 656024004235 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 656024004236 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 656024004237 putative di-iron ligands [ion binding]; other site 656024004238 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 656024004239 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 656024004240 classical (c) SDRs; Region: SDR_c; cd05233 656024004241 NAD(P) binding site [chemical binding]; other site 656024004242 active site 656024004243 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 656024004244 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 656024004245 Walker A/P-loop; other site 656024004246 ATP binding site [chemical binding]; other site 656024004247 Q-loop/lid; other site 656024004248 ABC transporter signature motif; other site 656024004249 Walker B; other site 656024004250 D-loop; other site 656024004251 H-loop/switch region; other site 656024004252 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 656024004253 TM-ABC transporter signature motif; other site 656024004254 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 656024004255 TM-ABC transporter signature motif; other site 656024004256 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 656024004257 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 656024004258 Walker A/P-loop; other site 656024004259 ATP binding site [chemical binding]; other site 656024004260 Q-loop/lid; other site 656024004261 ABC transporter signature motif; other site 656024004262 Walker B; other site 656024004263 D-loop; other site 656024004264 H-loop/switch region; other site 656024004265 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024004266 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024004267 putative ligand binding site [chemical binding]; other site 656024004268 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 656024004269 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 656024004270 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 656024004271 Walker A/P-loop; other site 656024004272 ATP binding site [chemical binding]; other site 656024004273 Q-loop/lid; other site 656024004274 ABC transporter signature motif; other site 656024004275 Walker B; other site 656024004276 D-loop; other site 656024004277 H-loop/switch region; other site 656024004278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024004279 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 656024004280 Walker A/P-loop; other site 656024004281 ATP binding site [chemical binding]; other site 656024004282 Q-loop/lid; other site 656024004283 ABC transporter signature motif; other site 656024004284 Walker B; other site 656024004285 D-loop; other site 656024004286 H-loop/switch region; other site 656024004287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024004288 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 656024004289 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 656024004290 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024004291 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 656024004292 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024004293 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 656024004294 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024004295 active site 656024004296 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024004297 non-prolyl cis peptide bond; other site 656024004298 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 656024004299 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 656024004300 Helix-turn-helix domains; Region: HTH; cl00088 656024004301 Helix-turn-helix domains; Region: HTH; cl00088 656024004302 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004303 Helix-turn-helix domains; Region: HTH; cl00088 656024004304 Integrase core domain; Region: rve; cl01316 656024004305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024004306 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 656024004307 putative substrate translocation pore; other site 656024004308 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 656024004309 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 656024004310 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024004311 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004312 Integrase core domain; Region: rve; cl01316 656024004313 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 656024004314 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 656024004315 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 656024004316 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 656024004317 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 656024004318 active site 656024004319 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024004320 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024004321 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004322 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 656024004323 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 656024004324 active site 656024004325 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024004326 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 656024004327 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 3, complex (x); Region: KR_3_FAS_SDR_x; cd08956 656024004328 putative NADP binding site [chemical binding]; other site 656024004329 active site 656024004330 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004331 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 656024004332 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 656024004333 active site 656024004334 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024004335 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 656024004336 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 3, complex (x); Region: KR_3_FAS_SDR_x; cd08956 656024004337 putative NADP binding site [chemical binding]; other site 656024004338 active site 656024004339 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004340 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 656024004341 active site 656024004342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024004343 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024004344 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004345 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 656024004346 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 656024004347 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 656024004348 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 656024004349 active site 656024004350 hypothetical protein; Provisional; Region: PRK08244 656024004351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004352 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 656024004353 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024004354 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024004355 Integrase core domain; Region: rve; cl01316 656024004356 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 656024004357 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 656024004358 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 656024004359 DNA binding residues [nucleotide binding] 656024004360 dimerization interface [polypeptide binding]; other site 656024004361 Helix-turn-helix domains; Region: HTH; cl00088 656024004362 Helix-turn-helix domains; Region: HTH; cl00088 656024004363 Helix-turn-helix domains; Region: HTH; cl00088 656024004364 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 656024004365 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 656024004366 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 656024004367 active site 656024004368 FMN binding site [chemical binding]; other site 656024004369 substrate binding site [chemical binding]; other site 656024004370 3Fe-4S cluster binding site [ion binding]; other site 656024004371 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 656024004372 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024004373 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024004374 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 656024004375 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024004376 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024004377 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024004378 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 656024004379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 656024004380 Helix-turn-helix domains; Region: HTH; cl00088 656024004381 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024004382 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024004383 active site 656024004384 non-prolyl cis peptide bond; other site 656024004385 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 656024004386 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 656024004387 Walker A/P-loop; other site 656024004388 ATP binding site [chemical binding]; other site 656024004389 Q-loop/lid; other site 656024004390 ABC transporter signature motif; other site 656024004391 Walker B; other site 656024004392 D-loop; other site 656024004393 H-loop/switch region; other site 656024004394 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024004395 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 656024004396 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 656024004397 dimer interface [polypeptide binding]; other site 656024004398 conserved gate region; other site 656024004399 putative PBP binding loops; other site 656024004400 ABC-ATPase subunit interface; other site 656024004401 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 656024004402 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 656024004403 Walker A/P-loop; other site 656024004404 ATP binding site [chemical binding]; other site 656024004405 Q-loop/lid; other site 656024004406 ABC transporter signature motif; other site 656024004407 Walker B; other site 656024004408 D-loop; other site 656024004409 H-loop/switch region; other site 656024004410 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024004411 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024004412 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 656024004413 putative PBP binding loops; other site 656024004414 dimer interface [polypeptide binding]; other site 656024004415 ABC-ATPase subunit interface; other site 656024004416 Helix-turn-helix domains; Region: HTH; cl00088 656024004417 putative transposase OrfB; Reviewed; Region: PHA02517 656024004418 HTH-like domain; Region: HTH_21; pfam13276 656024004419 Integrase core domain; Region: rve; cl01316 656024004420 Integrase core domain; Region: rve_3; cl15866 656024004421 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 656024004422 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024004423 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024004424 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 656024004425 TMP-binding site; other site 656024004426 ATP-binding site [chemical binding]; other site 656024004427 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024004428 DNA binding residues [nucleotide binding] 656024004429 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 656024004430 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 656024004431 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024004432 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 656024004433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004434 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024004435 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024004436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024004437 Walker A/P-loop; other site 656024004438 ATP binding site [chemical binding]; other site 656024004439 Q-loop/lid; other site 656024004440 ABC transporter signature motif; other site 656024004441 Walker B; other site 656024004442 D-loop; other site 656024004443 H-loop/switch region; other site 656024004444 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 656024004445 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024004446 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 656024004447 Walker A/P-loop; other site 656024004448 ATP binding site [chemical binding]; other site 656024004449 Q-loop/lid; other site 656024004450 ABC transporter signature motif; other site 656024004451 Walker B; other site 656024004452 D-loop; other site 656024004453 H-loop/switch region; other site 656024004454 Helix-turn-helix domains; Region: HTH; cl00088 656024004455 putative transposase OrfB; Reviewed; Region: PHA02517 656024004456 HTH-like domain; Region: HTH_21; pfam13276 656024004457 Integrase core domain; Region: rve; cl01316 656024004458 Integrase core domain; Region: rve_3; cl15866 656024004459 TIR domain; Region: TIR_2; cl15770 656024004460 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 656024004461 nucleotide binding site/active site [active] 656024004462 HIT family signature motif; other site 656024004463 catalytic residue [active] 656024004464 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024004465 putative active site [active] 656024004466 Helix-turn-helix domains; Region: HTH; cl00088 656024004467 putative transposase OrfB; Reviewed; Region: PHA02517 656024004468 HTH-like domain; Region: HTH_21; pfam13276 656024004469 Integrase core domain; Region: rve; cl01316 656024004470 Integrase core domain; Region: rve_3; cl15866 656024004471 putative transposase OrfB; Reviewed; Region: PHA02517 656024004472 HTH-like domain; Region: HTH_21; pfam13276 656024004473 Integrase core domain; Region: rve; cl01316 656024004474 Integrase core domain; Region: rve_3; cl15866 656024004475 Helix-turn-helix domains; Region: HTH; cl00088 656024004476 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024004477 Clp protease; Region: CLP_protease; pfam00574 656024004478 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 656024004479 oligomer interface [polypeptide binding]; other site 656024004480 active site residues [active] 656024004481 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 656024004482 sequence-specific DNA binding site [nucleotide binding]; other site 656024004483 salt bridge; other site 656024004484 PAS domain; Region: PAS_9; pfam13426 656024004485 PAS fold; Region: PAS_4; pfam08448 656024004486 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 656024004487 putative active site [active] 656024004488 heme pocket [chemical binding]; other site 656024004489 GAF domain; Region: GAF; cl15785 656024004490 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 656024004491 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024004492 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 656024004493 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024004494 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024004495 active site 656024004496 non-prolyl cis peptide bond; other site 656024004497 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 656024004498 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 656024004499 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024004500 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 656024004501 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 656024004502 homodimer interface [polypeptide binding]; other site 656024004503 substrate-cofactor binding pocket; other site 656024004504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024004505 catalytic residue [active] 656024004506 hypothetical protein; Provisional; Region: PRK07208 656024004507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004508 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 656024004509 GAF domain; Region: GAF; cl15785 656024004510 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 656024004511 DNA binding residues [nucleotide binding] 656024004512 dimerization interface [polypeptide binding]; other site 656024004513 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 656024004514 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004515 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 656024004516 GAF domain; Region: GAF_2; pfam13185 656024004517 GAF domain; Region: GAF; cl15785 656024004518 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 656024004519 DNA binding residues [nucleotide binding] 656024004520 dimerization interface [polypeptide binding]; other site 656024004521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004522 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024004523 NAD(P) binding site [chemical binding]; other site 656024004524 enoyl-CoA hydratase; Provisional; Region: PRK06688 656024004525 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 656024004526 substrate binding site [chemical binding]; other site 656024004527 oxyanion hole (OAH) forming residues; other site 656024004528 trimer interface [polypeptide binding]; other site 656024004529 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 656024004530 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004531 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004532 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 656024004533 active site 2 [active] 656024004534 active site 1 [active] 656024004535 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 656024004536 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004537 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004538 active site 656024004539 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 656024004540 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 656024004541 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004542 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004543 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024004544 Transcriptional regulators [Transcription]; Region: FadR; COG2186 656024004545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024004546 DNA-binding site [nucleotide binding]; DNA binding site 656024004547 FCD domain; Region: FCD; cl11656 656024004548 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004549 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004552 active site 656024004553 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024004554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004555 NAD(P) binding site [chemical binding]; other site 656024004556 active site 656024004557 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 656024004558 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 656024004559 dimer interface [polypeptide binding]; other site 656024004560 active site 656024004561 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 656024004562 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 656024004563 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 656024004564 active site 656024004565 catalytic residues [active] 656024004566 metal binding site [ion binding]; metal-binding site 656024004567 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 656024004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004569 NAD(P) binding site [chemical binding]; other site 656024004570 active site 656024004571 enoyl-CoA hydratase; Provisional; Region: PRK07658 656024004572 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 656024004573 substrate binding site [chemical binding]; other site 656024004574 oxyanion hole (OAH) forming residues; other site 656024004575 trimer interface [polypeptide binding]; other site 656024004576 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 656024004577 Helix-turn-helix domains; Region: HTH; cl00088 656024004578 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004579 Helix-turn-helix domains; Region: HTH; cl00088 656024004580 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 656024004581 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 656024004582 substrate binding site [chemical binding]; other site 656024004583 oxyanion hole (OAH) forming residues; other site 656024004584 trimer interface [polypeptide binding]; other site 656024004585 enoyl-CoA hydratase; Provisional; Region: PRK06688 656024004586 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 656024004587 substrate binding site [chemical binding]; other site 656024004588 oxyanion hole (OAH) forming residues; other site 656024004589 trimer interface [polypeptide binding]; other site 656024004590 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 656024004591 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 656024004592 NAD(P) binding site [chemical binding]; other site 656024004593 short chain dehydrogenase; Provisional; Region: PRK07677 656024004594 substrate binding site [chemical binding]; other site 656024004595 homotetramer interface [polypeptide binding]; other site 656024004596 active site 656024004597 homodimer interface [polypeptide binding]; other site 656024004598 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 656024004599 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 656024004600 substrate binding site [chemical binding]; other site 656024004601 oxyanion hole (OAH) forming residues; other site 656024004602 trimer interface [polypeptide binding]; other site 656024004603 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024004604 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 656024004605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024004606 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 656024004607 catalytic loop [active] 656024004608 iron binding site [ion binding]; other site 656024004609 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 656024004610 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 656024004611 catalytic Zn binding site [ion binding]; other site 656024004612 NAD binding site [chemical binding]; other site 656024004613 structural Zn binding site [ion binding]; other site 656024004614 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 656024004615 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024004616 NAD binding site [chemical binding]; other site 656024004617 catalytic residues [active] 656024004618 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 656024004619 Transcriptional regulators [Transcription]; Region: FadR; COG2186 656024004620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024004621 DNA-binding site [nucleotide binding]; DNA binding site 656024004622 FCD domain; Region: FCD; cl11656 656024004623 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 656024004624 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 656024004625 active site 656024004626 metal binding site [ion binding]; metal-binding site 656024004627 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 656024004628 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 656024004629 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 656024004630 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 656024004631 iron-sulfur cluster [ion binding]; other site 656024004632 [2Fe-2S] cluster binding site [ion binding]; other site 656024004633 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 656024004634 putative alpha subunit interface [polypeptide binding]; other site 656024004635 putative active site [active] 656024004636 putative substrate binding site [chemical binding]; other site 656024004637 Fe binding site [ion binding]; other site 656024004638 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 656024004639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 656024004640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004641 NAD(P) binding site [chemical binding]; other site 656024004642 active site 656024004643 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 656024004644 acetaldehyde dehydrogenase; Validated; Region: PRK08300 656024004645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004646 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 656024004647 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 656024004648 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 656024004649 active site 656024004650 catalytic residues [active] 656024004651 metal binding site [ion binding]; metal-binding site 656024004652 DmpG-like communication domain; Region: DmpG_comm; pfam07836 656024004653 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 656024004654 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004655 GAF domain; Region: GAF_2; pfam13185 656024004656 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 656024004657 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 656024004658 DNA binding residues [nucleotide binding] 656024004659 dimerization interface [polypeptide binding]; other site 656024004660 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 656024004661 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004662 active site 656024004663 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 656024004664 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024004665 Permease; Region: Permease; cl00510 656024004666 Permease; Region: Permease; cl00510 656024004667 Helix-turn-helix domains; Region: HTH; cl00088 656024004668 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004669 Helix-turn-helix domains; Region: HTH; cl00088 656024004670 Integrase core domain; Region: rve; cl01316 656024004671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024004672 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 656024004673 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 656024004674 substrate binding site [chemical binding]; other site 656024004675 oxyanion hole (OAH) forming residues; other site 656024004676 trimer interface [polypeptide binding]; other site 656024004677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024004678 Helix-turn-helix domains; Region: HTH; cl00088 656024004679 acyl-CoA synthetase; Validated; Region: PRK08316 656024004680 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004681 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024004682 Permease; Region: Permease; cl00510 656024004683 Permease; Region: Permease; cl00510 656024004684 mce related protein; Region: MCE; pfam02470 656024004685 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 656024004686 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 656024004687 mce related protein; Region: MCE; pfam02470 656024004688 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 656024004689 mce related protein; Region: MCE; pfam02470 656024004690 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 656024004691 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 656024004692 mce related protein; Region: MCE; pfam02470 656024004693 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 656024004694 mce related protein; Region: MCE; pfam02470 656024004695 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 656024004696 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 656024004697 PPIC-type PPIASE domain; Region: Rotamase; cl08278 656024004698 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 656024004699 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024004700 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 656024004701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024004702 Helix-turn-helix domains; Region: HTH; cl00088 656024004703 Helix-turn-helix domains; Region: HTH; cl00088 656024004704 GAF domain; Region: GAF; cl15785 656024004705 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 656024004706 DNA binding residues [nucleotide binding] 656024004707 dimerization interface [polypeptide binding]; other site 656024004708 GAF domain; Region: GAF_2; pfam13185 656024004709 GAF domain; Region: GAF; cl15785 656024004710 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 656024004711 DNA binding residues [nucleotide binding] 656024004712 dimerization interface [polypeptide binding]; other site 656024004713 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004714 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004715 active site 656024004716 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 656024004717 FMN binding site [chemical binding]; other site 656024004718 substrate binding site [chemical binding]; other site 656024004719 putative catalytic residue [active] 656024004720 acyl-CoA synthetase; Validated; Region: PRK06188 656024004721 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004722 AMP-binding enzyme; Region: AMP-binding; cl15778 656024004723 Flavin Reductases; Region: FlaRed; cl00801 656024004724 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024004725 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024004726 NAD(P) binding site [chemical binding]; other site 656024004727 catalytic residues [active] 656024004728 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 656024004729 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 656024004730 dimer interface [polypeptide binding]; other site 656024004731 active site 656024004732 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 656024004733 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 656024004734 substrate binding site [chemical binding]; other site 656024004735 oxyanion hole (OAH) forming residues; other site 656024004736 trimer interface [polypeptide binding]; other site 656024004737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004738 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 656024004739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004740 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 656024004741 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 656024004742 active site 656024004743 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 656024004744 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024004745 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 656024004746 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024004747 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024004748 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 656024004749 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 656024004750 carboxyltransferase (CT) interaction site; other site 656024004751 biotinylation site [posttranslational modification]; other site 656024004752 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 656024004753 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 656024004754 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 656024004755 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 656024004756 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024004757 Helix-turn-helix domains; Region: HTH; cl00088 656024004758 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024004759 Integrase core domain; Region: rve; cl01316 656024004760 putative transposase OrfB; Reviewed; Region: PHA02517 656024004761 HTH-like domain; Region: HTH_21; pfam13276 656024004762 Integrase core domain; Region: rve; cl01316 656024004763 Integrase core domain; Region: rve_3; cl15866 656024004764 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024004765 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 656024004766 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024004767 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 656024004768 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 656024004769 inhibitor-cofactor binding pocket; inhibition site 656024004770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024004771 catalytic residue [active] 656024004772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004773 Transposase domain (DUF772); Region: DUF772; cl15789 656024004774 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024004775 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024004776 putative active site [active] 656024004777 putative NTP binding site [chemical binding]; other site 656024004778 putative nucleic acid binding site [nucleotide binding]; other site 656024004779 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 656024004780 Helix-turn-helix domains; Region: HTH; cl00088 656024004781 putative transposase OrfB; Reviewed; Region: PHA02517 656024004782 HTH-like domain; Region: HTH_21; pfam13276 656024004783 Integrase core domain; Region: rve; cl01316 656024004784 Integrase core domain; Region: rve_3; cl15866 656024004785 Helix-turn-helix domains; Region: HTH; cl00088 656024004786 putative transposase OrfB; Reviewed; Region: PHA02517 656024004787 HTH-like domain; Region: HTH_21; pfam13276 656024004788 Integrase core domain; Region: rve; cl01316 656024004789 Integrase core domain; Region: rve_3; cl15866 656024004790 Helix-turn-helix domains; Region: HTH; cl00088 656024004791 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004792 Helix-turn-helix domains; Region: HTH; cl00088 656024004793 Integrase core domain; Region: rve; cl01316 656024004794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024004795 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 656024004796 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 656024004797 catalytic residues [active] 656024004798 catalytic nucleophile [active] 656024004799 Recombinase; Region: Recombinase; pfam07508 656024004800 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 656024004801 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 656024004802 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 656024004803 active site 656024004804 phosphorylation site [posttranslational modification] 656024004805 intermolecular recognition site; other site 656024004806 dimerization interface [polypeptide binding]; other site 656024004807 ANTAR domain; Region: ANTAR; cl04297 656024004808 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 656024004809 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 656024004810 MMPL family; Region: MMPL; pfam03176 656024004811 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 656024004812 Helix-turn-helix domains; Region: HTH; cl00088 656024004813 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 656024004814 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 656024004815 active site 656024004816 metal binding site [ion binding]; metal-binding site 656024004817 nudix motif; other site 656024004818 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 656024004819 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 656024004820 substrate binding site [chemical binding]; other site 656024004821 oxyanion hole (OAH) forming residues; other site 656024004822 trimer interface [polypeptide binding]; other site 656024004823 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 656024004824 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 656024004825 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 656024004826 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 656024004827 High-affinity nickel-transport protein; Region: NicO; cl00964 656024004828 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 656024004829 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 656024004830 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 656024004831 GAF domain; Region: GAF; cl15785 656024004832 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024004833 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 656024004834 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024004835 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 656024004836 Helix-turn-helix domains; Region: HTH; cl00088 656024004837 MASE1; Region: MASE1; pfam05231 656024004838 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024004839 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 656024004840 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 656024004841 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024004842 active site 656024004843 metal binding site [ion binding]; metal-binding site 656024004844 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 656024004845 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024004846 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 656024004847 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024004848 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024004849 active site 656024004850 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 656024004851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024004852 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 656024004853 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 656024004854 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 656024004855 dimerization interface [polypeptide binding]; other site 656024004856 ligand binding site [chemical binding]; other site 656024004857 Helix-turn-helix domains; Region: HTH; cl00088 656024004858 Winged helix-turn helix; Region: HTH_29; pfam13551 656024004859 Helix-turn-helix domains; Region: HTH; cl00088 656024004860 Integrase core domain; Region: rve; cl01316 656024004861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024004862 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 656024004863 CoenzymeA binding site [chemical binding]; other site 656024004864 subunit interaction site [polypeptide binding]; other site 656024004865 PHB binding site; other site 656024004866 DNA polymerase I; Provisional; Region: PRK05755 656024004867 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 656024004868 active site 656024004869 metal binding site 1 [ion binding]; metal-binding site 656024004870 putative 5' ssDNA interaction site; other site 656024004871 metal binding site 3; metal-binding site 656024004872 metal binding site 2 [ion binding]; metal-binding site 656024004873 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 656024004874 putative DNA binding site [nucleotide binding]; other site 656024004875 putative metal binding site [ion binding]; other site 656024004876 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 656024004877 active site 656024004878 catalytic site [active] 656024004879 substrate binding site [chemical binding]; other site 656024004880 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 656024004881 active site 656024004882 DNA binding site [nucleotide binding] 656024004883 catalytic site [active] 656024004884 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024004885 metal binding site [ion binding]; metal-binding site 656024004886 active site 656024004887 I-site; other site 656024004888 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 656024004889 GAF domain; Region: GAF; cl15785 656024004890 GAF domain; Region: GAF_2; pfam13185 656024004891 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 656024004892 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 656024004893 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 656024004894 Fibronectin type III-like domain; Region: Fn3-like; cl15273 656024004895 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 656024004896 S-adenosylmethionine binding site [chemical binding]; other site 656024004897 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 656024004898 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 656024004899 RNA binding site [nucleotide binding]; other site 656024004900 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 656024004901 RNA binding site [nucleotide binding]; other site 656024004902 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 656024004903 RNA binding site [nucleotide binding]; other site 656024004904 S1_RPS1_repeat_hs4: 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_hs4; cd05692 656024004905 RNA binding site [nucleotide binding]; other site 656024004906 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 656024004907 Short C-terminal domain; Region: SHOCT; cl01373 656024004908 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 656024004909 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 656024004910 CoA-binding site [chemical binding]; other site 656024004911 ATP-binding [chemical binding]; other site 656024004912 excinuclease ABC subunit B; Provisional; Region: PRK05298 656024004913 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 656024004914 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 656024004915 nucleotide binding region [chemical binding]; other site 656024004916 ATP-binding site [chemical binding]; other site 656024004917 Ultra-violet resistance protein B; Region: UvrB; pfam12344 656024004918 UvrB/uvrC motif; Region: UVR; pfam02151 656024004919 Proteins of 100 residues with WXG; Region: WXG100; cl02005 656024004920 ParB-like nuclease domain; Region: ParBc; cl02129 656024004921 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 656024004922 S-adenosylmethionine binding site [chemical binding]; other site 656024004923 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 656024004924 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 656024004925 substrate binding site [chemical binding]; other site 656024004926 ATP binding site [chemical binding]; other site 656024004927 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 656024004928 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 656024004929 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 656024004930 Ligand Binding Site [chemical binding]; other site 656024004931 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024004932 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 656024004933 Helix-turn-helix domains; Region: HTH; cl00088 656024004934 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 656024004935 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 656024004936 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; cl03189 656024004937 domain interfaces; other site 656024004938 active site 656024004939 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 656024004940 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 656024004941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024004942 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 656024004943 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 656024004944 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 656024004945 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 656024004946 Streptomyces sporulation and cell division protein, SsgA; Region: SsgA; pfam04686 656024004947 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 656024004948 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 656024004949 GIY-YIG motif/motif A; other site 656024004950 active site 656024004951 catalytic site [active] 656024004952 putative DNA binding site [nucleotide binding]; other site 656024004953 metal binding site [ion binding]; metal-binding site 656024004954 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 656024004955 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 656024004956 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 656024004957 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 656024004958 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 656024004959 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 656024004960 phosphate binding site [ion binding]; other site 656024004961 putative substrate binding pocket [chemical binding]; other site 656024004962 dimer interface [polypeptide binding]; other site 656024004963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 656024004964 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 656024004965 aconitate hydratase; Validated; Region: PRK09277 656024004966 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 656024004967 substrate binding site [chemical binding]; other site 656024004968 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 656024004969 ligand binding site [chemical binding]; other site 656024004970 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 656024004971 substrate binding site [chemical binding]; other site 656024004972 NlpC/P60 family; Region: NLPC_P60; cl11438 656024004973 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 656024004974 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 656024004975 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 656024004976 active site 656024004977 Substrate binding site; other site 656024004978 Mg++ binding site; other site 656024004979 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 656024004980 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 656024004981 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 656024004982 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 656024004983 lipoyl attachment site [posttranslational modification]; other site 656024004984 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 656024004985 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024004986 phosphopeptide binding site; other site 656024004987 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 656024004988 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 656024004989 DNA binding residues [nucleotide binding] 656024004990 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 656024004991 Bifunctional nuclease; Region: DNase-RNase; cl00553 656024004992 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024004993 DNA binding residues [nucleotide binding] 656024004994 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 656024004995 Cation efflux family; Region: Cation_efflux; cl00316 656024004996 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024004997 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 656024004998 Walker A/P-loop; other site 656024004999 ATP binding site [chemical binding]; other site 656024005000 Q-loop/lid; other site 656024005001 ABC transporter signature motif; other site 656024005002 Walker B; other site 656024005003 D-loop; other site 656024005004 H-loop/switch region; other site 656024005005 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024005006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005007 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 656024005008 Glycosyltransferase family 20; Region: Glyco_transf_20; pfam00982 656024005009 active site 656024005010 homotetramer interface [polypeptide binding]; other site 656024005011 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 656024005012 catalytic core [active] 656024005013 Transcription factor WhiB; Region: Whib; pfam02467 656024005014 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024005015 NlpC/P60 family; Region: NLPC_P60; cl11438 656024005016 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 656024005017 active site residue [active] 656024005018 Cysteine dioxygenase type I; Region: CDO_I; cl15835 656024005019 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024005020 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_10; cd07251 656024005021 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 656024005022 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 656024005023 putative substrate translocation pore; other site 656024005024 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024005025 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 656024005026 active site residue [active] 656024005027 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 656024005028 active site residue [active] 656024005029 Helix-turn-helix domains; Region: HTH; cl00088 656024005030 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 656024005031 active site residue [active] 656024005032 Helix-turn-helix domains; Region: HTH; cl00088 656024005033 putative transposase OrfB; Reviewed; Region: PHA02517 656024005034 HTH-like domain; Region: HTH_21; pfam13276 656024005035 Integrase core domain; Region: rve; cl01316 656024005036 Integrase core domain; Region: rve_3; cl15866 656024005037 OsmC-like protein; Region: OsmC; cl00767 656024005038 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 656024005039 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 656024005040 S-adenosylmethionine binding site [chemical binding]; other site 656024005041 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024005042 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 656024005043 EF-hand domain pair; Region: EF_hand_5; pfam13499 656024005044 Ca2+ binding site [ion binding]; other site 656024005045 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 656024005046 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 656024005047 ATP binding site [chemical binding]; other site 656024005048 putative Mg++ binding site [ion binding]; other site 656024005049 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 656024005050 nucleotide binding region [chemical binding]; other site 656024005051 ATP-binding site [chemical binding]; other site 656024005052 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 656024005053 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 656024005054 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 656024005055 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 656024005056 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 656024005057 Sulfatase; Region: Sulfatase; cl10460 656024005058 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 656024005059 Sulfatase; Region: Sulfatase; cl10460 656024005060 Predicted transcriptional regulator [Transcription]; Region: COG2378 656024005061 WYL domain; Region: WYL; cl14852 656024005062 Predicted transcriptional regulator [Transcription]; Region: COG2378 656024005063 WYL domain; Region: WYL; cl14852 656024005064 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 656024005065 Pup-ligase protein; Region: Pup_ligase; cl15463 656024005066 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 656024005067 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 656024005068 active site 656024005069 Proteasome subunit beta type-5; Provisional; Region: PTZ00488 656024005070 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 656024005071 active site 656024005072 Pup-like protein; Region: Pup; cl05289 656024005073 Pup-ligase protein; Region: Pup_ligase; cl15463 656024005074 chromosome segregation protein; Provisional; Region: PRK02224 656024005075 proteasome ATPase; Region: pup_AAA; TIGR03689 656024005076 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 656024005077 Walker A motif; other site 656024005078 ATP binding site [chemical binding]; other site 656024005079 Walker B motif; other site 656024005080 arginine finger; other site 656024005081 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 656024005082 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 656024005083 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 656024005084 S-adenosylmethionine binding site [chemical binding]; other site 656024005085 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 656024005086 active site 656024005087 putative substrate binding region [chemical binding]; other site 656024005088 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 656024005089 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 656024005090 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 656024005091 Walker A/P-loop; other site 656024005092 ATP binding site [chemical binding]; other site 656024005093 Q-loop/lid; other site 656024005094 ABC transporter signature motif; other site 656024005095 Walker B; other site 656024005096 D-loop; other site 656024005097 H-loop/switch region; other site 656024005098 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 656024005099 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 656024005100 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 656024005101 FtsX-like permease family; Region: FtsX; cl15850 656024005102 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 656024005103 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 656024005104 active site 656024005105 Helix-turn-helix domains; Region: HTH; cl00088 656024005106 putative transposase OrfB; Reviewed; Region: PHA02517 656024005107 HTH-like domain; Region: HTH_21; pfam13276 656024005108 Integrase core domain; Region: rve; cl01316 656024005109 Integrase core domain; Region: rve_3; cl15866 656024005110 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 656024005111 DNA binding site [nucleotide binding] 656024005112 dimer interface [polypeptide binding]; other site 656024005113 Int/Topo IB signature motif; other site 656024005114 active site 656024005115 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; cl00246 656024005116 FAD binding site [chemical binding]; other site 656024005117 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 656024005118 Helix-turn-helix domains; Region: HTH; cl00088 656024005119 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 656024005120 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 656024005121 homodimer interface [polypeptide binding]; other site 656024005122 substrate-cofactor binding pocket; other site 656024005123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005124 catalytic residue [active] 656024005125 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 656024005126 nudix motif; other site 656024005127 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 656024005128 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 656024005129 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 656024005130 active site 656024005131 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 656024005132 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 656024005133 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 656024005134 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 656024005135 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 656024005136 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 656024005137 active site 656024005138 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 656024005139 dimerization interface [polypeptide binding]; other site 656024005140 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 656024005141 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024005142 hypothetical protein; Provisional; Region: PRK07208 656024005143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005144 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024005145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005146 Family description; Region: UvrD_C_2; cl15862 656024005147 Bacitracin resistance protein BacA; Region: BacA; cl00858 656024005148 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 656024005149 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 656024005150 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like 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 kinases (PKs); Region: PI3Kc_like; cl00119 656024005151 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024005152 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 656024005153 active site 656024005154 HIGH motif; other site 656024005155 nucleotide binding site [chemical binding]; other site 656024005156 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024005157 active site 656024005158 KMSKS motif; other site 656024005159 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 656024005160 tRNA binding surface [nucleotide binding]; other site 656024005161 anticodon binding site; other site 656024005162 PAC2 family; Region: PAC2; cl00847 656024005163 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 656024005164 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 656024005165 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 656024005166 substrate binding pocket [chemical binding]; other site 656024005167 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 656024005168 B12 binding site [chemical binding]; other site 656024005169 cobalt ligand [ion binding]; other site 656024005170 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 656024005171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024005172 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 656024005173 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 656024005174 motif II; other site 656024005175 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024005176 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 656024005177 putative substrate translocation pore; other site 656024005178 Helix-turn-helix domains; Region: HTH; cl00088 656024005179 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 656024005180 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 656024005181 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 656024005182 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 656024005183 NADH dehydrogenase; Region: NADHdh; cl00469 656024005184 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 656024005185 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 656024005186 dimerization interface [polypeptide binding]; other site 656024005187 putative DNA binding site [nucleotide binding]; other site 656024005188 putative Zn2+ binding site [ion binding]; other site 656024005189 Helix-turn-helix domains; Region: HTH; cl00088 656024005190 putative transposase OrfB; Reviewed; Region: PHA02517 656024005191 HTH-like domain; Region: HTH_21; pfam13276 656024005192 Integrase core domain; Region: rve; cl01316 656024005193 Integrase core domain; Region: rve_3; cl15866 656024005194 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 656024005195 Helix-turn-helix domains; Region: HTH; cl00088 656024005196 putative transposase OrfB; Reviewed; Region: PHA02517 656024005197 HTH-like domain; Region: HTH_21; pfam13276 656024005198 Integrase core domain; Region: rve; cl01316 656024005199 Integrase core domain; Region: rve_3; cl15866 656024005200 acyltransferase PapA5; Provisional; Region: PRK09294 656024005201 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 656024005202 catalytic residues [active] 656024005203 Helix-turn-helix domains; Region: HTH; cl00088 656024005204 putative transposase OrfB; Reviewed; Region: PHA02517 656024005205 HTH-like domain; Region: HTH_21; pfam13276 656024005206 Integrase core domain; Region: rve; cl01316 656024005207 Integrase core domain; Region: rve_3; cl15866 656024005208 CobD/Cbib protein; Region: CobD_Cbib; cl00561 656024005209 cobyric acid synthase; Provisional; Region: PRK00784 656024005210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005212 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 656024005213 catalytic triad [active] 656024005214 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 656024005215 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 656024005216 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 656024005217 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024005218 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 656024005219 DNA binding residues [nucleotide binding] 656024005220 dimerization interface [polypeptide binding]; other site 656024005221 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024005222 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 656024005223 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 656024005224 DNA binding residues [nucleotide binding] 656024005225 Helix-turn-helix domains; Region: HTH; cl00088 656024005226 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 656024005227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005228 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 656024005229 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 656024005230 Ligand binding site; other site 656024005231 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 656024005232 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 656024005233 Bacterial sugar transferase; Region: Bac_transf; cl00939 656024005234 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 656024005235 active site 656024005236 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 656024005237 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 656024005238 inhibitor-cofactor binding pocket; inhibition site 656024005239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005240 catalytic residue [active] 656024005241 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 656024005242 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 656024005243 NAD binding site [chemical binding]; other site 656024005244 substrate binding site [chemical binding]; other site 656024005245 active site 656024005246 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 656024005247 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 656024005248 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 656024005249 active site 656024005250 dimer interface [polypeptide binding]; other site 656024005251 motif 1; other site 656024005252 motif 2; other site 656024005253 motif 3; other site 656024005254 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 656024005255 anticodon binding site; other site 656024005256 O-Antigen ligase; Region: Wzy_C; cl04850 656024005257 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024005258 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024005259 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 656024005260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005261 TIGR01777 family protein; Region: yfcH 656024005262 NAD(P) binding site [chemical binding]; other site 656024005263 active site 656024005264 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 656024005265 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 656024005266 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 656024005267 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 656024005268 apolar tunnel; other site 656024005269 heme binding site [chemical binding]; other site 656024005270 dimerization interface [polypeptide binding]; other site 656024005271 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024005272 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 656024005273 active site 656024005274 phosphorylation site [posttranslational modification] 656024005275 intermolecular recognition site; other site 656024005276 dimerization interface [polypeptide binding]; other site 656024005277 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 656024005278 DNA binding residues [nucleotide binding] 656024005279 dimerization interface [polypeptide binding]; other site 656024005280 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024005281 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 656024005282 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 656024005283 DNA binding residues [nucleotide binding] 656024005284 dimerization interface [polypeptide binding]; other site 656024005285 Polyketide synthesis cyclase; Region: Cyclase_polyket; pfam04673 656024005286 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024005287 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024005288 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 656024005289 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 656024005290 carboxyltransferase (CT) interaction site; other site 656024005291 biotinylation site [posttranslational modification]; other site 656024005292 N-terminal aromatase/cyclase domain of the multifunctional protein tetracenomycin (TcmN) and related domains; Region: TcmN_ARO-CYC_like; cd08860 656024005293 putative hydrophobic ligand binding site [chemical binding]; other site 656024005294 active site 656024005295 catalytic residues_2 [active] 656024005296 catalytic residues_1 [active] 656024005297 Cupin domain; Region: Cupin_2; cl09118 656024005298 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 656024005299 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024005300 dimer interface [polypeptide binding]; other site 656024005301 active site 656024005302 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 656024005303 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024005304 active site 656024005305 Helix-turn-helix domains; Region: HTH; cl00088 656024005306 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 656024005307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005308 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 656024005309 metal ion-dependent adhesion site (MIDAS); other site 656024005310 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 656024005311 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 656024005312 homodimer interface [polypeptide binding]; other site 656024005313 Walker A motif; other site 656024005314 ATP binding site [chemical binding]; other site 656024005315 hydroxycobalamin binding site [chemical binding]; other site 656024005316 Walker B motif; other site 656024005317 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 656024005318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005319 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 656024005320 catalytic triad [active] 656024005321 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024005322 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 656024005323 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024005324 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 656024005325 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 656024005326 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 656024005327 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024005328 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 656024005329 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 656024005330 putative active site [active] 656024005331 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 656024005332 putative active site [active] 656024005333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005334 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024005335 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024005336 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024005337 putative active site [active] 656024005338 putative transposase OrfB; Reviewed; Region: PHA02517 656024005339 HTH-like domain; Region: HTH_21; pfam13276 656024005340 Integrase core domain; Region: rve; cl01316 656024005341 Integrase core domain; Region: rve_3; cl15866 656024005342 Helix-turn-helix domains; Region: HTH; cl00088 656024005343 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024005344 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 656024005345 putative acyl-acceptor binding pocket; other site 656024005346 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 656024005347 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 656024005348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005349 NAD(P) binding site [chemical binding]; other site 656024005350 fatty acyl-CoA reductase; Region: PLN02996 656024005351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005352 NAD(P) binding site [chemical binding]; other site 656024005353 active site 656024005354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005355 active site 656024005356 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 656024005357 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 656024005358 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024005359 5'-3' exonuclease, N-terminal resolvase-like domain; Region: 5_3_exonuc_N; pfam02739 656024005360 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 656024005361 active site 656024005362 metal binding site 1 [ion binding]; metal-binding site 656024005363 putative 5' ssDNA interaction site; other site 656024005364 metal binding site 3; metal-binding site 656024005365 metal binding site 2 [ion binding]; metal-binding site 656024005366 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 656024005367 putative DNA binding site [nucleotide binding]; other site 656024005368 putative metal binding site [ion binding]; other site 656024005369 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 656024005370 Helix-turn-helix domains; Region: HTH; cl00088 656024005371 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 656024005372 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 656024005373 active site 656024005374 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 656024005375 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005376 Integrase core domain; Region: rve; cl01316 656024005377 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 656024005378 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 656024005379 putative active site [active] 656024005380 catalytic triad [active] 656024005381 putative dimer interface [polypeptide binding]; other site 656024005382 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 656024005383 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 656024005384 Ligand binding site; other site 656024005385 Putative Catalytic site; other site 656024005386 DXD motif; other site 656024005387 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 656024005388 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 656024005389 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 656024005390 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 656024005391 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 656024005392 AMP-binding enzyme; Region: AMP-binding; cl15778 656024005393 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 656024005394 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 656024005395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005396 NAD(P) binding pocket [chemical binding]; other site 656024005397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024005398 metal binding site [ion binding]; metal-binding site 656024005399 active site 656024005400 I-site; other site 656024005401 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 656024005402 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 656024005403 inhibitor-cofactor binding pocket; inhibition site 656024005404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005405 catalytic residue [active] 656024005406 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 656024005407 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024005408 Rhomboid family; Region: Rhomboid; cl11446 656024005409 pyruvate carboxylase; Reviewed; Region: PRK12999 656024005410 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024005411 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024005412 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 656024005413 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 656024005414 active site 656024005415 catalytic residues [active] 656024005416 metal binding site [ion binding]; metal-binding site 656024005417 homodimer binding site [polypeptide binding]; other site 656024005418 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 656024005419 carboxyltransferase (CT) interaction site; other site 656024005420 biotinylation site [posttranslational modification]; other site 656024005421 Helix-turn-helix domains; Region: HTH; cl00088 656024005422 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 656024005423 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 656024005424 Ligand Binding Site [chemical binding]; other site 656024005425 Molecular Tunnel; other site 656024005426 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 656024005427 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024005428 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024005429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005430 Walker A/P-loop; other site 656024005431 ATP binding site [chemical binding]; other site 656024005432 Q-loop/lid; other site 656024005433 ABC transporter signature motif; other site 656024005434 Walker B; other site 656024005435 D-loop; other site 656024005436 H-loop/switch region; other site 656024005437 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 656024005438 Helix-turn-helix domains; Region: HTH; cl00088 656024005439 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005440 Helix-turn-helix domains; Region: HTH; cl00088 656024005441 Integrase core domain; Region: rve; cl01316 656024005442 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024005443 hypothetical protein; Provisional; Region: PRK07906 656024005444 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 656024005445 putative metal binding site [ion binding]; other site 656024005446 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 656024005447 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 656024005448 DNA binding residues [nucleotide binding] 656024005449 dimer interface [polypeptide binding]; other site 656024005450 [2Fe-2S] cluster binding site [ion binding]; other site 656024005451 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005452 Integrase core domain; Region: rve; cl01316 656024005453 Helix-turn-helix domains; Region: HTH; cl00088 656024005454 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005455 Helix-turn-helix domains; Region: HTH; cl00088 656024005456 Integrase core domain; Region: rve; cl01316 656024005457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024005458 Helix-turn-helix domains; Region: HTH; cl00088 656024005459 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005460 Helix-turn-helix domains; Region: HTH; cl00088 656024005461 Integrase core domain; Region: rve; cl01316 656024005462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024005463 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 656024005464 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024005465 putative substrate translocation pore; other site 656024005466 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024005467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005468 Walker A/P-loop; other site 656024005469 ATP binding site [chemical binding]; other site 656024005470 Q-loop/lid; other site 656024005471 ABC transporter signature motif; other site 656024005472 Walker B; other site 656024005473 D-loop; other site 656024005474 H-loop/switch region; other site 656024005475 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024005476 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 656024005477 active site 656024005478 phosphorylation site [posttranslational modification] 656024005479 intermolecular recognition site; other site 656024005480 dimerization interface [polypeptide binding]; other site 656024005481 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 656024005482 DNA binding residues [nucleotide binding] 656024005483 dimerization interface [polypeptide binding]; other site 656024005484 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 656024005485 Histidine kinase; Region: HisKA_3; pfam07730 656024005486 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 656024005487 putative homotetramer interface [polypeptide binding]; other site 656024005488 putative homodimer interface [polypeptide binding]; other site 656024005489 putative allosteric switch controlling residues; other site 656024005490 putative metal binding site [ion binding]; other site 656024005491 putative homodimer-homodimer interface [polypeptide binding]; other site 656024005492 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 656024005493 metal-binding site [ion binding] 656024005494 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 656024005495 metal-binding site [ion binding] 656024005496 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 656024005497 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 656024005498 Helix-turn-helix domains; Region: HTH; cl00088 656024005499 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005500 Helix-turn-helix domains; Region: HTH; cl00088 656024005501 Integrase core domain; Region: rve; cl01316 656024005502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024005503 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024005504 Integrase core domain; Region: rve; cl01316 656024005505 Radical SAM superfamily; Region: Radical_SAM; pfam04055 656024005506 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; cl15377 656024005507 FeS/SAM binding site; other site 656024005508 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 656024005509 Dienelactone hydrolase family; Region: DLH; pfam01738 656024005510 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 656024005511 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 656024005512 inhibitor-cofactor binding pocket; inhibition site 656024005513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005514 catalytic residue [active] 656024005515 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024005516 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 656024005517 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 656024005518 Domain of unknown function (DUF1876); Region: DUF1876; pfam08962 656024005519 Protein of unknown function DUF72; Region: DUF72; cl00777 656024005520 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 656024005521 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 656024005522 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 656024005523 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 656024005524 protein binding site [polypeptide binding]; other site 656024005525 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 656024005526 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024005527 NlpC/P60 family; Region: NLPC_P60; cl11438 656024005528 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 656024005529 DNA-binding site [nucleotide binding]; DNA binding site 656024005530 RNA-binding motif; other site 656024005531 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 656024005532 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 656024005533 TPP-binding site [chemical binding]; other site 656024005534 dimer interface [polypeptide binding]; other site 656024005535 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 656024005536 PYR/PP interface [polypeptide binding]; other site 656024005537 dimer interface [polypeptide binding]; other site 656024005538 TPP binding site [chemical binding]; other site 656024005539 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 656024005540 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 656024005541 Iron permease FTR1 family; Region: FTR1; cl00475 656024005542 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 656024005543 Imelysin; Region: Peptidase_M75; cl09159 656024005544 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 656024005545 Helix-turn-helix domains; Region: HTH; cl00088 656024005546 putative transposase OrfB; Reviewed; Region: PHA02517 656024005547 HTH-like domain; Region: HTH_21; pfam13276 656024005548 Integrase core domain; Region: rve; cl01316 656024005549 Integrase core domain; Region: rve_3; cl15866 656024005550 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005551 Integrase core domain; Region: rve; cl01316 656024005552 Helix-turn-helix domains; Region: HTH; cl00088 656024005553 putative transposase OrfB; Reviewed; Region: PHA02517 656024005554 HTH-like domain; Region: HTH_21; pfam13276 656024005555 Integrase core domain; Region: rve; cl01316 656024005556 Integrase core domain; Region: rve_3; cl15866 656024005557 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024005558 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 656024005559 putative active site [active] 656024005560 putative NTP binding site [chemical binding]; other site 656024005561 putative nucleic acid binding site [nucleotide binding]; other site 656024005562 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 656024005563 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; cd00200 656024005564 structural tetrad; other site 656024005565 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 656024005566 Helix-turn-helix domains; Region: HTH; cl00088 656024005567 Helix-turn-helix domains; Region: HTH; cl00088 656024005568 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 656024005569 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024005570 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 656024005571 putative substrate translocation pore; other site 656024005572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024005573 Helix-turn-helix domains; Region: HTH; cl00088 656024005574 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024005575 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024005576 active site 656024005577 non-prolyl cis peptide bond; other site 656024005578 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024005579 Integrase core domain; Region: rve; cl01316 656024005580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 656024005581 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 656024005582 ABC-ATPase subunit interface; other site 656024005583 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024005584 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 656024005585 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 656024005586 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024005587 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 656024005588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005589 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 656024005590 Hydrogenase formation hypA family; Region: HypD; cl12072 656024005591 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 656024005592 HupF/HypC family; Region: HupF_HypC; cl00394 656024005593 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 656024005594 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 656024005595 dimerization interface [polypeptide binding]; other site 656024005596 ATP binding site [chemical binding]; other site 656024005597 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 656024005598 dimer interface [polypeptide binding]; other site 656024005599 active site 656024005600 HupF/HypC family; Region: HupF_HypC; cl00394 656024005601 HupF/HypC family; Region: HupF_HypC; cl00394 656024005602 Acylphosphatase; Region: Acylphosphatase; cl00551 656024005603 HypF finger; Region: zf-HYPF; pfam07503 656024005604 HypF finger; Region: zf-HYPF; pfam07503 656024005605 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 656024005606 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 656024005607 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 656024005608 nickel binding site [ion binding]; other site 656024005609 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 656024005610 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 656024005611 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 656024005612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005613 Helix-turn-helix domains; Region: HTH; cl00088 656024005614 Winged helix-turn helix; Region: HTH_29; pfam13551 656024005615 Helix-turn-helix domains; Region: HTH; cl00088 656024005616 Integrase core domain; Region: rve; cl01316 656024005617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024005618 Helix-turn-helix domains; Region: HTH; cl00088 656024005619 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 656024005620 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 656024005621 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 656024005622 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 656024005623 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 656024005624 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024005625 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 656024005626 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 656024005627 oligomer interface [polypeptide binding]; other site 656024005628 active site residues [active] 656024005629 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 656024005630 homodimer interface [polypeptide binding]; other site 656024005631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005632 catalytic residue [active] 656024005633 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 656024005634 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 656024005635 non-specific DNA binding site [nucleotide binding]; other site 656024005636 salt bridge; other site 656024005637 sequence-specific DNA binding site [nucleotide binding]; other site 656024005638 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 656024005639 hypothetical protein; Provisional; Region: PRK07877 656024005640 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 656024005641 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 656024005642 Ligand Binding Site [chemical binding]; other site 656024005643 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 656024005644 Ligand Binding Site [chemical binding]; other site 656024005645 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 656024005646 putative dimer interface [polypeptide binding]; other site 656024005647 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 656024005648 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 656024005649 putative active site [active] 656024005650 oxyanion strand; other site 656024005651 catalytic triad [active] 656024005652 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 656024005653 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 656024005654 putative active site pocket [active] 656024005655 4-fold oligomerization interface [polypeptide binding]; other site 656024005656 metal binding residues [ion binding]; metal-binding site 656024005657 3-fold/trimer interface [polypeptide binding]; other site 656024005658 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 656024005659 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 656024005660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005661 homodimer interface [polypeptide binding]; other site 656024005662 catalytic residue [active] 656024005663 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 656024005664 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 656024005665 NAD binding site [chemical binding]; other site 656024005666 dimerization interface [polypeptide binding]; other site 656024005667 product binding site; other site 656024005668 substrate binding site [chemical binding]; other site 656024005669 zinc binding site [ion binding]; other site 656024005670 catalytic residues [active] 656024005671 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024005672 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024005673 S-adenosyl methyltransferase; Region: Methyltransf_19; pfam04672 656024005674 Leucine carboxyl methyltransferase; Region: LCM; cl01306 656024005675 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 656024005676 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 656024005677 TIGR02680 family protein; Region: TIGR02680 656024005678 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 656024005679 Protein of unknown function (DUF2398); Region: DUF2398; cl09875 656024005680 TIGR02677 family protein; Region: TIGR02677 656024005681 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 656024005682 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 656024005683 Helix-turn-helix domains; Region: HTH; cl00088 656024005684 WHG domain; Region: WHG; pfam13305 656024005685 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 656024005686 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 656024005687 dimer interface [polypeptide binding]; other site 656024005688 catalytic triad [active] 656024005689 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 656024005690 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 656024005691 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 656024005692 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 656024005693 dimer interface [polypeptide binding]; other site 656024005694 TPP-binding site [chemical binding]; other site 656024005695 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 656024005696 Cupin domain; Region: Cupin_2; cl09118 656024005697 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 656024005698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005699 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024005700 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 656024005701 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 656024005702 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 656024005703 putative active site [active] 656024005704 putative substrate binding site [chemical binding]; other site 656024005705 putative cosubstrate binding site; other site 656024005706 catalytic site [active] 656024005707 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 656024005708 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 656024005709 substrate binding site [chemical binding]; other site 656024005710 oxyanion hole (OAH) forming residues; other site 656024005711 trimer interface [polypeptide binding]; other site 656024005712 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024005713 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024005714 putative metal binding site [ion binding]; other site 656024005715 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 656024005716 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 656024005717 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024005718 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 656024005719 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; cd00317 656024005720 active site 656024005721 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 656024005722 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 656024005723 ATP binding site [chemical binding]; other site 656024005724 putative Mg++ binding site [ion binding]; other site 656024005725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024005726 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 656024005727 synthetase active site [active] 656024005728 NTP binding site [chemical binding]; other site 656024005729 metal binding site [ion binding]; metal-binding site 656024005730 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 656024005731 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 656024005732 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 656024005733 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 656024005734 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024005735 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 656024005736 synthetase active site [active] 656024005737 NTP binding site [chemical binding]; other site 656024005738 metal binding site [ion binding]; metal-binding site 656024005739 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 656024005740 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 656024005741 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 656024005742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024005743 active site 656024005744 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 656024005745 Protein export membrane protein; Region: SecD_SecF; cl14618 656024005746 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 656024005747 Protein export membrane protein; Region: SecD_SecF; cl14618 656024005748 Preprotein translocase subunit; Region: YajC; cl00806 656024005749 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 656024005750 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 656024005751 Walker A motif; other site 656024005752 ATP binding site [chemical binding]; other site 656024005753 Walker B motif; other site 656024005754 arginine finger; other site 656024005755 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 656024005756 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 656024005757 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 656024005758 active site 656024005759 putative DNA-binding cleft [nucleotide binding]; other site 656024005760 dimer interface [polypeptide binding]; other site 656024005761 Transcriptional regulator; Region: Transcrip_reg; cl00361 656024005762 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 656024005763 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13143 656024005764 predicted active site [active] 656024005765 catalytic triad [active] 656024005766 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 656024005767 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 656024005768 active site 656024005769 multimer interface [polypeptide binding]; other site 656024005770 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024005771 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 656024005772 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 656024005773 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 656024005774 putative acyl-acceptor binding pocket; other site 656024005775 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 656024005776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005777 elongation factor G; Reviewed; Region: PRK12740 656024005778 G1 box; other site 656024005779 GTP/Mg2+ binding site [chemical binding]; other site 656024005780 G2 box; other site 656024005781 Switch I region; other site 656024005782 G3 box; other site 656024005783 Switch II region; other site 656024005784 G4 box; other site 656024005785 G5 box; other site 656024005786 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 656024005787 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 656024005788 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 656024005789 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 656024005790 nucleotide binding site/active site [active] 656024005791 HIT family signature motif; other site 656024005792 catalytic residue [active] 656024005793 Cytochrome P450; Region: p450; pfam00067 656024005794 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024005795 Streptomyces sporulation and cell division protein, SsgA; Region: SsgA; pfam04686 656024005796 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 656024005797 chorismate binding enzyme; Region: Chorismate_bind; cl10555 656024005798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024005799 Helix-turn-helix domains; Region: HTH; cl00088 656024005800 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 656024005801 active site 656024005802 metal binding site [ion binding]; metal-binding site 656024005803 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 656024005804 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 656024005805 Isochorismatase family; Region: Isochorismatase; pfam00857 656024005806 catalytic triad [active] 656024005807 metal binding site [ion binding]; metal-binding site 656024005808 conserved cis-peptide bond; other site 656024005809 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 656024005810 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 656024005811 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 656024005812 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 656024005813 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 656024005814 active site 656024005815 catalytic site [active] 656024005816 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 656024005817 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 656024005818 active site 656024005819 catalytic site [active] 656024005820 potential frameshift: common BLAST hit: gi|159037594|ref|YP_001536847.1| CRISPR-associated helicase Cas3 656024005821 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 656024005822 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005823 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 656024005824 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 656024005825 Walker A/P-loop; other site 656024005826 ATP binding site [chemical binding]; other site 656024005827 Q-loop/lid; other site 656024005828 ABC transporter signature motif; other site 656024005829 Walker B; other site 656024005830 D-loop; other site 656024005831 H-loop/switch region; other site 656024005832 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024005833 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 656024005834 Helix-turn-helix domains; Region: HTH; cl00088 656024005835 putative transposase OrfB; Reviewed; Region: PHA02517 656024005836 HTH-like domain; Region: HTH_21; pfam13276 656024005837 Integrase core domain; Region: rve; cl01316 656024005838 Integrase core domain; Region: rve_3; cl15866 656024005839 Htaa; Region: HtaA; pfam04213 656024005840 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024005841 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 656024005842 Leucine carboxyl methyltransferase; Region: LCM; cl01306 656024005843 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024005844 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 656024005845 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 656024005846 putative acyl-acceptor binding pocket; other site 656024005847 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 656024005848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005849 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 656024005850 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 656024005851 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 656024005852 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 656024005853 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 656024005854 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 656024005855 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 656024005856 Predicted transcriptional regulators [Transcription]; Region: COG1725 656024005857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024005858 DNA-binding site [nucleotide binding]; DNA binding site 656024005859 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 656024005860 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 656024005861 malonyl-CoA binding site [chemical binding]; other site 656024005862 dimer interface [polypeptide binding]; other site 656024005863 active site 656024005864 product binding site; other site 656024005865 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024005866 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 656024005867 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 656024005868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 656024005869 Nitronate monooxygenase; Region: NMO; pfam03060 656024005870 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 656024005871 FMN binding site [chemical binding]; other site 656024005872 substrate binding site [chemical binding]; other site 656024005873 putative catalytic residue [active] 656024005874 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 656024005875 active site 656024005876 dimer interface [polypeptide binding]; other site 656024005877 motif 2; other site 656024005878 motif 3; other site 656024005879 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024005880 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 656024005881 active site 656024005882 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 656024005883 acetylornithine aminotransferase; Provisional; Region: PRK02627 656024005884 inhibitor-cofactor binding pocket; inhibition site 656024005885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024005886 catalytic residue [active] 656024005887 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cd00421 656024005888 active site 656024005889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024005890 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 656024005891 NAD(P) binding site [chemical binding]; other site 656024005892 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 656024005893 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 656024005894 Phosphotransferase enzyme family; Region: APH; pfam01636 656024005895 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 656024005896 putative active site [active] 656024005897 putative substrate binding site [chemical binding]; other site 656024005898 ATP binding site [chemical binding]; other site 656024005899 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024005900 classical (c) SDRs; Region: SDR_c; cd05233 656024005901 NAD(P) binding site [chemical binding]; other site 656024005902 active site 656024005903 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 656024005904 Amidinotransferase; Region: Amidinotransf; cl12043 656024005905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005906 PAS fold; Region: PAS_4; pfam08448 656024005907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024005908 metal binding site [ion binding]; metal-binding site 656024005909 active site 656024005910 I-site; other site 656024005911 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 656024005912 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 656024005913 DNA binding residues [nucleotide binding] 656024005914 dimerization interface [polypeptide binding]; other site 656024005915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024005916 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 656024005917 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 656024005918 Walker A/P-loop; other site 656024005919 ATP binding site [chemical binding]; other site 656024005920 Q-loop/lid; other site 656024005921 ABC transporter signature motif; other site 656024005922 Walker B; other site 656024005923 D-loop; other site 656024005924 H-loop/switch region; other site 656024005925 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024005926 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 656024005927 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 656024005928 Walker A/P-loop; other site 656024005929 ATP binding site [chemical binding]; other site 656024005930 Q-loop/lid; other site 656024005931 ABC transporter signature motif; other site 656024005932 Walker B; other site 656024005933 D-loop; other site 656024005934 H-loop/switch region; other site 656024005935 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 656024005936 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 656024005937 ABC-ATPase subunit interface; other site 656024005938 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 656024005939 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 656024005940 putative substrate translocation pore; other site 656024005941 Helix-turn-helix domains; Region: HTH; cl00088 656024005942 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 656024005943 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 656024005944 nucleophilic elbow; other site 656024005945 catalytic triad; other site 656024005946 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 656024005947 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 656024005948 active site 656024005949 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024005950 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024005951 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024005952 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024005953 classical (c) SDRs; Region: SDR_c; cd05233 656024005954 NAD(P) binding site [chemical binding]; other site 656024005955 active site 656024005956 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 656024005957 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 656024005958 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 656024005959 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024005960 WHG domain; Region: WHG; pfam13305 656024005961 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 656024005962 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024005963 putative substrate translocation pore; other site 656024005964 malate synthase A; Region: malate_syn_A; TIGR01344 656024005965 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 656024005966 active site 656024005967 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 656024005968 Helix-turn-helix domains; Region: HTH; cl00088 656024005969 putative transposase OrfB; Reviewed; Region: PHA02517 656024005970 HTH-like domain; Region: HTH_21; pfam13276 656024005971 Integrase core domain; Region: rve; cl01316 656024005972 Integrase core domain; Region: rve_3; cl15866 656024005973 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024005974 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 656024005975 putative active site [active] 656024005976 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 656024005977 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 656024005978 Walker A motif; other site 656024005979 ATP binding site [chemical binding]; other site 656024005980 Walker B motif; other site 656024005981 arginine finger; other site 656024005982 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 656024005983 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 656024005984 Walker A motif; other site 656024005985 ATP binding site [chemical binding]; other site 656024005986 Walker B motif; other site 656024005987 arginine finger; other site 656024005988 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 656024005989 Prostaglandin dehydrogenases; Region: PGDH; cd05288 656024005990 NAD(P) binding site [chemical binding]; other site 656024005991 substrate binding site [chemical binding]; other site 656024005992 dimer interface [polypeptide binding]; other site 656024005993 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 656024005994 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 656024005995 putative oxidoreductase FixC; Provisional; Region: PRK10157 656024005996 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 656024005997 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 656024005998 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 656024005999 putative active site [active] 656024006000 putative FMN binding site [chemical binding]; other site 656024006001 putative substrate binding site [chemical binding]; other site 656024006002 putative catalytic residue [active] 656024006003 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 656024006004 phosphate binding site [ion binding]; other site 656024006005 mycofactocin system FadH/OYE family oxidoreductase 1; Region: mycofact_OYE_1; TIGR03996 656024006006 mycofactocin radical SAM maturase; Region: rSAM_MSMEG_1423; TIGR03962 656024006007 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 656024006008 FeS/SAM binding site; other site 656024006009 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 656024006010 mycofactocin system RPExFGAL protein; Region: Ac_RPExFGAL; TIGR03967 656024006011 mycofactocin precursor; Region: mycofactocin; TIGR03969 656024006012 Helix-turn-helix domains; Region: HTH; cl00088 656024006013 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 656024006014 CoA-transferase family III; Region: CoA_transf_3; pfam02515 656024006015 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024006016 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024006017 putative ligand binding site [chemical binding]; other site 656024006018 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024006019 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024006020 putative ligand binding site [chemical binding]; other site 656024006021 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024006022 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024006023 putative ligand binding site [chemical binding]; other site 656024006024 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 656024006025 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 656024006026 Walker A/P-loop; other site 656024006027 ATP binding site [chemical binding]; other site 656024006028 Q-loop/lid; other site 656024006029 ABC transporter signature motif; other site 656024006030 Walker B; other site 656024006031 D-loop; other site 656024006032 H-loop/switch region; other site 656024006033 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 656024006034 TM-ABC transporter signature motif; other site 656024006035 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 656024006036 TM-ABC transporter signature motif; other site 656024006037 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 656024006038 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 656024006039 Walker A/P-loop; other site 656024006040 ATP binding site [chemical binding]; other site 656024006041 Q-loop/lid; other site 656024006042 ABC transporter signature motif; other site 656024006043 Walker B; other site 656024006044 D-loop; other site 656024006045 H-loop/switch region; other site 656024006046 Helix-turn-helix domains; Region: HTH; cl00088 656024006047 putative transposase OrfB; Reviewed; Region: PHA02517 656024006048 HTH-like domain; Region: HTH_21; pfam13276 656024006049 Integrase core domain; Region: rve; cl01316 656024006050 Integrase core domain; Region: rve_3; cl15866 656024006051 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 656024006052 mce related protein; Region: MCE; pfam02470 656024006053 mce related protein; Region: MCE; pfam02470 656024006054 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 656024006055 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 656024006056 mce related protein; Region: MCE; pfam02470 656024006057 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 656024006058 Winged helix-turn helix; Region: HTH_29; pfam13551 656024006059 Integrase core domain; Region: rve; cl01316 656024006060 Helix-turn-helix domains; Region: HTH; cl00088 656024006061 Winged helix-turn helix; Region: HTH_29; pfam13551 656024006062 Helix-turn-helix domains; Region: HTH; cl00088 656024006063 Integrase core domain; Region: rve; cl01316 656024006064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024006065 Helix-turn-helix domains; Region: HTH; cl00088 656024006066 Winged helix-turn helix; Region: HTH_29; pfam13551 656024006067 Helix-turn-helix domains; Region: HTH; cl00088 656024006068 Integrase core domain; Region: rve; cl01316 656024006069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024006070 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 656024006071 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 656024006072 probable F420-dependent oxidoreductase, MSMEG_2249 family; Region: F420_MSMEG_2249; TIGR03857 656024006073 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024006074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006075 Predicted ATPase [General function prediction only]; Region: COG3899 656024006076 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 656024006077 DNA binding residues [nucleotide binding] 656024006078 dimerization interface [polypeptide binding]; other site 656024006079 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 656024006080 DNA binding residues [nucleotide binding] 656024006081 dimerization interface [polypeptide binding]; other site 656024006082 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 656024006083 active site 656024006084 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 656024006085 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 656024006086 tetramer interface [polypeptide binding]; other site 656024006087 active site 656024006088 Mg2+/Mn2+ binding site [ion binding]; other site 656024006089 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 656024006090 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 656024006091 Subunit I/III interface [polypeptide binding]; other site 656024006092 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 656024006093 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 656024006094 classical (c) SDRs; Region: SDR_c; cd05233 656024006095 NAD(P) binding site [chemical binding]; other site 656024006096 active site 656024006097 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 656024006098 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024006099 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 656024006100 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006101 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006102 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024006103 DUF35 OB-fold domain; Region: DUF35; pfam01796 656024006104 lipid-transfer protein; Provisional; Region: PRK07855 656024006105 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 656024006106 active site 656024006107 Phosphotransferase enzyme family; Region: APH; pfam01636 656024006108 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 656024006109 putative active site [active] 656024006110 putative substrate binding site [chemical binding]; other site 656024006111 ATP binding site [chemical binding]; other site 656024006112 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024006113 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024006114 NAD(P) binding site [chemical binding]; other site 656024006115 catalytic residues [active] 656024006116 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 656024006117 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024006118 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024006119 active site 656024006120 ATP binding site [chemical binding]; other site 656024006121 substrate binding site [chemical binding]; other site 656024006122 activation loop (A-loop); other site 656024006123 Predicted ATPase [General function prediction only]; Region: COG3899 656024006124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006125 GAF domain; Region: GAF; cl15785 656024006126 Histidine kinase; Region: HisKA_3; pfam07730 656024006127 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 656024006128 ATP binding site [chemical binding]; other site 656024006129 Mg2+ binding site [ion binding]; other site 656024006130 G-X-G motif; other site 656024006131 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024006132 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 656024006133 active site 656024006134 phosphorylation site [posttranslational modification] 656024006135 intermolecular recognition site; other site 656024006136 dimerization interface [polypeptide binding]; other site 656024006137 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 656024006138 dimerization interface [polypeptide binding]; other site 656024006139 DNA binding residues [nucleotide binding] 656024006140 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024006141 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 656024006142 Fic/DOC family; Region: Fic; cl00960 656024006143 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024006144 nudix motif; other site 656024006145 tellurite resistance protein terB; Region: terB; cd07176 656024006146 putative metal binding site [ion binding]; other site 656024006147 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024006148 nudix motif; other site 656024006149 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 656024006150 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024006151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 656024006152 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 656024006153 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 656024006154 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 656024006155 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 656024006156 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 656024006157 RNA binding site [nucleotide binding]; other site 656024006158 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024006159 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024006160 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 656024006161 putative active site [active] 656024006162 putative NTP binding site [chemical binding]; other site 656024006163 putative nucleic acid binding site [nucleotide binding]; other site 656024006164 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024006165 Integrase core domain; Region: rve; cl01316 656024006166 Helix-turn-helix domains; Region: HTH; cl00088 656024006167 putative transposase OrfB; Reviewed; Region: PHA02517 656024006168 HTH-like domain; Region: HTH_21; pfam13276 656024006169 Integrase core domain; Region: rve; cl01316 656024006170 Integrase core domain; Region: rve_3; cl15866 656024006171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006172 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 656024006173 Mechanosensitive ion channel; Region: MS_channel; pfam00924 656024006174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006175 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 656024006176 active site 656024006177 Helix-turn-helix domains; Region: HTH; cl00088 656024006178 putative transposase OrfB; Reviewed; Region: PHA02517 656024006179 HTH-like domain; Region: HTH_21; pfam13276 656024006180 Integrase core domain; Region: rve; cl01316 656024006181 Integrase core domain; Region: rve_3; cl15866 656024006182 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 656024006183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 656024006184 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 656024006185 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024006186 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006187 Walker A/P-loop; other site 656024006188 ATP binding site [chemical binding]; other site 656024006189 Q-loop/lid; other site 656024006190 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14246 656024006191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006192 ABC transporter signature motif; other site 656024006193 Walker B; other site 656024006194 D-loop; other site 656024006195 H-loop/switch region; other site 656024006196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006197 Walker A/P-loop; other site 656024006198 ATP binding site [chemical binding]; other site 656024006199 Q-loop/lid; other site 656024006200 ABC transporter signature motif; other site 656024006201 Walker B; other site 656024006202 D-loop; other site 656024006203 H-loop/switch region; other site 656024006204 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 656024006205 Helix-turn-helix domains; Region: HTH; cl00088 656024006206 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024006207 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024006208 active site 656024006209 non-prolyl cis peptide bond; other site 656024006210 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_9; cd08496 656024006211 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024006212 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024006213 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 656024006214 dimer interface [polypeptide binding]; other site 656024006215 conserved gate region; other site 656024006216 putative PBP binding loops; other site 656024006217 ABC-ATPase subunit interface; other site 656024006218 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024006219 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024006220 active site 656024006221 non-prolyl cis peptide bond; other site 656024006222 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 656024006223 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024006224 Helix-turn-helix domains; Region: HTH; cl00088 656024006225 putative transposase OrfB; Reviewed; Region: PHA02517 656024006226 HTH-like domain; Region: HTH_21; pfam13276 656024006227 Integrase core domain; Region: rve; cl01316 656024006228 Integrase core domain; Region: rve_3; cl15866 656024006229 Restriction endonuclease; Region: Mrr_cat; cl00516 656024006230 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024006231 ATP binding site [chemical binding]; other site 656024006232 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024006233 Protein kinase domain; Region: Pkinase; pfam00069 656024006234 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024006235 active site 656024006236 ATP binding site [chemical binding]; other site 656024006237 substrate binding site [chemical binding]; other site 656024006238 activation loop (A-loop); other site 656024006239 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024006240 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024006241 putative active site [active] 656024006242 TIR domain; Region: TIR_2; cl15770 656024006243 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 656024006244 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024006245 active site 656024006246 metal binding site [ion binding]; metal-binding site 656024006247 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024006248 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 656024006249 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 656024006250 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 656024006251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006252 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024006253 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024006254 hypothetical protein; Provisional; Region: PRK06184 656024006255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006257 Chain-length factor (CLF) is a factor required for polyketide chain initiation of aromatic antibiotic-producing polyketide synthases (PKSs) of filamentous bacteria. CLFs have been shown to have decarboxylase activity towards malonyl-acyl carrier protein; Region: CLF; cd00832 656024006258 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024006259 active site 656024006260 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024006261 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 656024006262 dimer interface [polypeptide binding]; other site 656024006263 active site 656024006264 Cupin domain; Region: Cupin_2; cl09118 656024006265 N-terminal aromatase/cyclase domain of the multifunctional protein tetracenomycin (TcmN) and related domains; Region: TcmN_ARO-CYC_like; cd08860 656024006266 putative hydrophobic ligand binding site [chemical binding]; other site 656024006267 active site 656024006268 catalytic residues_2 [active] 656024006269 catalytic residues_1 [active] 656024006270 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006271 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 656024006272 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024006273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024006274 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 656024006275 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 656024006276 carboxyltransferase (CT) interaction site; other site 656024006277 biotinylation site [posttranslational modification]; other site 656024006278 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 656024006279 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006280 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006281 Polyketide synthesis cyclase; Region: Cyclase_polyket; pfam04673 656024006282 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 656024006283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006284 Family description; Region: UvrD_C_2; cl15862 656024006285 Creatinine amidohydrolase; Region: Creatininase; cl00618 656024006286 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 656024006287 active site 656024006288 classical (c) SDRs; Region: SDR_c; cd05233 656024006289 NAD(P) binding site [chemical binding]; other site 656024006290 active site 656024006291 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 656024006292 Helix-turn-helix domains; Region: HTH; cl00088 656024006293 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024006294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024006295 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024006296 Integrase core domain; Region: rve; cl01316 656024006297 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 656024006298 non-specific DNA binding site [nucleotide binding]; other site 656024006299 salt bridge; other site 656024006300 sequence-specific DNA binding site [nucleotide binding]; other site 656024006301 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024006302 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 656024006303 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 656024006304 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024006305 catalytic residue [active] 656024006306 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 656024006307 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 656024006308 ATP binding site [chemical binding]; other site 656024006309 substrate interface [chemical binding]; other site 656024006310 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 656024006311 NifU-like domain; Region: NifU; cl00484 656024006312 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 656024006313 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 656024006314 NifU-like domain; Region: NifU; cl00484 656024006315 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 656024006316 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 656024006317 FeS/SAM binding site; other site 656024006318 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 656024006319 NifZ domain; Region: NifZ; pfam04319 656024006320 Nitrogen fixation protein NifW; Region: NifW; cl03935 656024006321 Rop-like; Region: Rop-like; cl02247 656024006322 Protein of unknown function, DUF269; Region: DUF269; cl03973 656024006323 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 656024006324 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 656024006325 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 656024006326 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 656024006327 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 656024006328 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 656024006329 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 656024006330 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 656024006331 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 656024006332 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 656024006333 MoFe protein alpha/beta subunit interactions; other site 656024006334 Alpha subunit P cluster binding residues; other site 656024006335 FeMoco binding residues [chemical binding]; other site 656024006336 MoFe protein alpha subunit/Fe protein contacts; other site 656024006337 MoFe protein dimer/ dimer interactions; other site 656024006338 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 656024006339 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 656024006340 Nucleotide-binding sites [chemical binding]; other site 656024006341 Walker A motif; other site 656024006342 Switch I region of nucleotide binding site; other site 656024006343 Fe4S4 binding sites [ion binding]; other site 656024006344 Switch II region of nucleotide binding site; other site 656024006345 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 656024006346 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 656024006347 active site 656024006348 catalytic residues [active] 656024006349 metal binding site [ion binding]; metal-binding site 656024006350 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 656024006351 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 656024006352 TPP-binding site [chemical binding]; other site 656024006353 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 656024006354 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 656024006355 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 656024006356 dimer interface [polypeptide binding]; other site 656024006357 PYR/PP interface [polypeptide binding]; other site 656024006358 TPP binding site [chemical binding]; other site 656024006359 substrate binding site [chemical binding]; other site 656024006360 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024006361 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024006362 putative active site [active] 656024006363 seryl-tRNA synthetase; Provisional; Region: PRK05431 656024006364 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 656024006365 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 656024006366 dimer interface [polypeptide binding]; other site 656024006367 active site 656024006368 motif 1; other site 656024006369 motif 2; other site 656024006370 motif 3; other site 656024006371 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 656024006372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006373 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 656024006374 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 656024006375 active site 656024006376 dimer interface [polypeptide binding]; other site 656024006377 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 656024006378 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 656024006379 active site 656024006380 FMN binding site [chemical binding]; other site 656024006381 substrate binding site [chemical binding]; other site 656024006382 3Fe-4S cluster binding site [ion binding]; other site 656024006383 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 656024006384 domain interface; other site 656024006385 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 656024006386 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 656024006387 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 656024006388 substrate binding site [chemical binding]; other site 656024006389 active site 656024006390 catalytic residues [active] 656024006391 heterodimer interface [polypeptide binding]; other site 656024006392 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 656024006393 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 656024006394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024006395 catalytic residue [active] 656024006396 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 656024006397 active site 656024006398 ribulose/triose binding site [chemical binding]; other site 656024006399 phosphate binding site [ion binding]; other site 656024006400 substrate (anthranilate) binding pocket [chemical binding]; other site 656024006401 product (indole) binding pocket [chemical binding]; other site 656024006402 anthranilate synthase component I; Provisional; Region: PRK13571 656024006403 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 656024006404 chorismate binding enzyme; Region: Chorismate_bind; cl10555 656024006405 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 656024006406 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 656024006407 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 656024006408 substrate binding pocket [chemical binding]; other site 656024006409 membrane-bound complex binding site; other site 656024006410 hinge residues; other site 656024006411 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024006412 active site 656024006413 ATP binding site [chemical binding]; other site 656024006414 substrate binding site [chemical binding]; other site 656024006415 activation loop (A-loop); other site 656024006416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 656024006417 Double zinc ribbon; Region: DZR; pfam12773 656024006418 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 656024006419 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 656024006420 metal ion-dependent adhesion site (MIDAS); other site 656024006421 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024006422 phosphopeptide binding site; other site 656024006423 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024006424 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006425 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024006426 Walker A/P-loop; other site 656024006427 ATP binding site [chemical binding]; other site 656024006428 Q-loop/lid; other site 656024006429 ABC transporter signature motif; other site 656024006430 Walker B; other site 656024006431 D-loop; other site 656024006432 H-loop/switch region; other site 656024006433 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024006434 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 656024006435 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006436 Walker A/P-loop; other site 656024006437 ATP binding site [chemical binding]; other site 656024006438 Q-loop/lid; other site 656024006439 ABC transporter signature motif; other site 656024006440 Walker B; other site 656024006441 D-loop; other site 656024006442 H-loop/switch region; other site 656024006443 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 656024006444 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 656024006445 substrate binding site [chemical binding]; other site 656024006446 glutamase interaction surface [polypeptide binding]; other site 656024006447 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 656024006448 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 656024006449 catalytic residues [active] 656024006450 YceI-like domain; Region: YceI; cl01001 656024006451 Transmembrane secretion effector; Region: MFS_3; pfam05977 656024006452 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 656024006453 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024006454 Integrase core domain; Region: rve; cl01316 656024006455 Helix-turn-helix domains; Region: HTH; cl00088 656024006456 putative transposase OrfB; Reviewed; Region: PHA02517 656024006457 HTH-like domain; Region: HTH_21; pfam13276 656024006458 Integrase core domain; Region: rve; cl01316 656024006459 Integrase core domain; Region: rve_3; cl15866 656024006460 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024006461 Integrase core domain; Region: rve; cl01316 656024006462 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 656024006463 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 656024006464 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 656024006465 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 656024006466 putative active site [active] 656024006467 putative substrate binding site [chemical binding]; other site 656024006468 ATP binding site [chemical binding]; other site 656024006469 GAF domain; Region: GAF_2; pfam13185 656024006470 GAF domain; Region: GAF; cl15785 656024006471 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 656024006472 DNA binding residues [nucleotide binding] 656024006473 dimerization interface [polypeptide binding]; other site 656024006474 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 656024006475 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 656024006476 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 656024006477 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024006478 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 656024006479 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 656024006480 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024006481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 656024006482 Helix-turn-helix domains; Region: HTH; cl00088 656024006483 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 656024006484 dimerization interface [polypeptide binding]; other site 656024006485 substrate binding pocket [chemical binding]; other site 656024006486 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 656024006487 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 656024006488 FMN-binding pocket [chemical binding]; other site 656024006489 flavin binding motif; other site 656024006490 phosphate binding motif [ion binding]; other site 656024006491 beta-alpha-beta structure motif; other site 656024006492 NAD binding pocket [chemical binding]; other site 656024006493 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 656024006494 catalytic loop [active] 656024006495 iron binding site [ion binding]; other site 656024006496 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 656024006497 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 656024006498 Walker A/P-loop; other site 656024006499 ATP binding site [chemical binding]; other site 656024006500 Q-loop/lid; other site 656024006501 ABC transporter signature motif; other site 656024006502 Walker B; other site 656024006503 D-loop; other site 656024006504 H-loop/switch region; other site 656024006505 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 656024006506 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 656024006507 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024006508 active site 656024006509 metal binding site [ion binding]; metal-binding site 656024006510 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 656024006511 Helix-turn-helix domains; Region: HTH; cl00088 656024006512 putative transposase OrfB; Reviewed; Region: PHA02517 656024006513 HTH-like domain; Region: HTH_21; pfam13276 656024006514 Integrase core domain; Region: rve; cl01316 656024006515 Integrase core domain; Region: rve_3; cl15866 656024006516 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 656024006517 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 656024006518 dimer interface [polypeptide binding]; other site 656024006519 conserved gate region; other site 656024006520 putative PBP binding loops; other site 656024006521 ABC-ATPase subunit interface; other site 656024006522 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 656024006523 Transposase; Region: DDE_Tnp_ISL3; pfam01610 656024006524 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 656024006525 Cytochrome P450; Region: p450; pfam00067 656024006526 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024006527 Helix-turn-helix domains; Region: HTH; cl00088 656024006528 Winged helix-turn helix; Region: HTH_29; pfam13551 656024006529 Helix-turn-helix domains; Region: HTH; cl00088 656024006530 Integrase core domain; Region: rve; cl01316 656024006531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024006532 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 656024006533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006534 NAD(P) binding site [chemical binding]; other site 656024006535 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 656024006536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 656024006537 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024006538 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006539 Cupin domain; Region: Cupin_2; cl09118 656024006540 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 656024006541 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024006542 active site 656024006543 HIGH motif; other site 656024006544 nucleotide binding site [chemical binding]; other site 656024006545 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024006546 active site 656024006547 KMSKS motif; other site 656024006548 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 656024006549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024006551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024006552 active site 656024006553 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 656024006554 active site 656024006555 catalytic triad [active] 656024006556 oxyanion hole [active] 656024006557 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 656024006558 dinuclear metal binding motif [ion binding]; other site 656024006559 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006560 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 656024006561 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006562 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 656024006563 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024006564 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024006565 ATP phosphoribosyltransferase; Region: HisG; cl15266 656024006566 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 656024006567 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 656024006568 carboxyltransferase (CT) interaction site; other site 656024006569 biotinylation site [posttranslational modification]; other site 656024006570 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006571 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006572 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 656024006573 FMN binding site [chemical binding]; other site 656024006574 substrate binding site [chemical binding]; other site 656024006575 putative catalytic residue [active] 656024006576 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 656024006577 active site 1 [active] 656024006578 dimer interface [polypeptide binding]; other site 656024006579 active site 2 [active] 656024006580 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 656024006581 active site 656024006582 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024006583 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024006584 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006585 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 656024006586 putative NADP binding site [chemical binding]; other site 656024006587 active site 656024006588 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 656024006589 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 656024006590 active site 656024006591 catalytic triad [active] 656024006592 oxyanion hole [active] 656024006593 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 656024006594 CoenzymeA binding site [chemical binding]; other site 656024006595 subunit interaction site [polypeptide binding]; other site 656024006596 PHB binding site; other site 656024006597 Helix-turn-helix domains; Region: HTH; cl00088 656024006598 putative transposase OrfB; Reviewed; Region: PHA02517 656024006599 HTH-like domain; Region: HTH_21; pfam13276 656024006600 Integrase core domain; Region: rve; cl01316 656024006601 Integrase core domain; Region: rve_3; cl15866 656024006602 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024006603 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024006604 active site 656024006605 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 656024006606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006607 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 656024006608 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006609 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024006610 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 656024006611 putative substrate translocation pore; other site 656024006612 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 656024006613 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024006614 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 656024006615 CoenzymeA binding site [chemical binding]; other site 656024006616 subunit interaction site [polypeptide binding]; other site 656024006617 PHB binding site; other site 656024006618 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 656024006619 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 656024006620 motif II; other site 656024006621 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024006622 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 656024006623 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006624 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 656024006625 dinuclear metal binding motif [ion binding]; other site 656024006626 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006627 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 656024006628 dinuclear metal binding motif [ion binding]; other site 656024006629 Helix-turn-helix domains; Region: HTH; cl00088 656024006630 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 656024006631 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 656024006632 PAS fold; Region: PAS_3; pfam08447 656024006633 putative active site [active] 656024006634 heme pocket [chemical binding]; other site 656024006635 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 656024006636 PAS domain; Region: PAS_9; pfam13426 656024006637 GAF domain; Region: GAF_2; pfam13185 656024006638 GAF domain; Region: GAF; cl15785 656024006639 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024006640 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 656024006641 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 656024006642 Protein of unknown function (DUF445); Region: DUF445; pfam04286 656024006643 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 656024006644 DEAD-like helicases superfamily; Region: DEXDc; smart00487 656024006645 ATP binding site [chemical binding]; other site 656024006646 Mg++ binding site [ion binding]; other site 656024006647 motif III; other site 656024006648 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 656024006649 nucleotide binding region [chemical binding]; other site 656024006650 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024006651 putative active site [active] 656024006652 L-lysine aminotransferase; Provisional; Region: PRK08297 656024006653 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 656024006654 inhibitor-cofactor binding pocket; inhibition site 656024006655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024006656 catalytic residue [active] 656024006657 Protein kinase domain; Region: Pkinase; pfam00069 656024006658 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024006659 active site 656024006660 ATP binding site [chemical binding]; other site 656024006661 substrate binding site [chemical binding]; other site 656024006662 activation loop (A-loop); other site 656024006663 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 656024006664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006665 active site 656024006666 Fic/DOC family; Region: Fic; cl00960 656024006667 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 656024006668 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 656024006669 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 656024006670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006671 Walker B; other site 656024006672 D-loop; other site 656024006673 H-loop/switch region; other site 656024006674 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 656024006675 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 656024006676 putative active site [active] 656024006677 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 656024006678 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024006679 DNA binding residues [nucleotide binding] 656024006680 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 656024006681 Prostaglandin dehydrogenases; Region: PGDH; cd05288 656024006682 NAD(P) binding site [chemical binding]; other site 656024006683 substrate binding site [chemical binding]; other site 656024006684 dimer interface [polypeptide binding]; other site 656024006685 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 656024006686 putative active site [active] 656024006687 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024006688 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 656024006689 Archaeal ATPase; Region: Arch_ATPase; pfam01637 656024006690 Fic family protein [Function unknown]; Region: COG3177 656024006691 Fic/DOC family; Region: Fic; cl00960 656024006692 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024006693 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024006694 oligomeric interface; other site 656024006695 putative active site [active] 656024006696 homodimer interface [polypeptide binding]; other site 656024006697 NmrA-like family; Region: NmrA; pfam05368 656024006698 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 656024006699 NADP binding site [chemical binding]; other site 656024006700 active site 656024006701 regulatory binding site [polypeptide binding]; other site 656024006702 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 656024006703 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 656024006704 conserved cys residue [active] 656024006705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 656024006706 YcfA-like protein; Region: YcfA; cl00752 656024006707 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 656024006708 active site 656024006709 NTP binding site [chemical binding]; other site 656024006710 metal binding triad [ion binding]; metal-binding site 656024006711 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024006712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024006713 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 656024006714 putative active site [active] 656024006715 homotetrameric interface [polypeptide binding]; other site 656024006716 metal binding site [ion binding]; metal-binding site 656024006717 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 656024006718 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 656024006719 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 656024006720 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 656024006721 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024006722 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024006723 putative metal binding site [ion binding]; other site 656024006724 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 656024006725 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 656024006726 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 656024006727 active site 656024006728 catalytic tetrad [active] 656024006729 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 656024006730 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 656024006731 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 656024006732 SpoOM protein; Region: Spo0M; pfam07070 656024006733 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024006734 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024006735 active site 656024006736 ATP binding site [chemical binding]; other site 656024006737 substrate binding site [chemical binding]; other site 656024006738 activation loop (A-loop); other site 656024006739 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 656024006740 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 656024006741 NHL repeat; Region: NHL; pfam01436 656024006742 NHL repeat; Region: NHL; pfam01436 656024006743 NHL repeat; Region: NHL; pfam01436 656024006744 NHL repeat; Region: NHL; pfam01436 656024006745 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 656024006746 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 656024006747 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 656024006748 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 656024006749 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024006750 active site 656024006751 ATP binding site [chemical binding]; other site 656024006752 substrate binding site [chemical binding]; other site 656024006753 activation loop (A-loop); other site 656024006754 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 656024006755 active site 656024006756 PQQ-like domain; Region: PQQ_2; pfam13360 656024006757 Trp docking motif [polypeptide binding]; other site 656024006758 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 656024006759 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024006760 active site 656024006761 metal binding site [ion binding]; metal-binding site 656024006762 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 656024006763 OsmC-like protein; Region: OsmC; cl00767 656024006764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024006765 DNA-binding site [nucleotide binding]; DNA binding site 656024006766 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 656024006767 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 656024006768 active site 656024006769 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 656024006770 catalytic triad [active] 656024006771 dimer interface [polypeptide binding]; other site 656024006772 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 656024006773 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 656024006774 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 656024006775 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024006776 K+-transporting ATPase, c chain; Region: KdpC; cl00944 656024006777 K+-transporting ATPase, c chain; Region: KdpC; cl00944 656024006778 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 656024006779 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 656024006780 active site 656024006781 phosphorylation site [posttranslational modification] 656024006782 intermolecular recognition site; other site 656024006783 dimerization interface [polypeptide binding]; other site 656024006784 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 656024006785 DNA binding site [nucleotide binding] 656024006786 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 656024006787 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 656024006788 [2Fe-2S] cluster binding site [ion binding]; other site 656024006789 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 656024006790 alpha subunit interface [polypeptide binding]; other site 656024006791 active site 656024006792 substrate binding site [chemical binding]; other site 656024006793 Fe binding site [ion binding]; other site 656024006794 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 656024006795 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 656024006796 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024006797 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 656024006798 active site 656024006799 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 656024006800 CoA-transferase family III; Region: CoA_transf_3; pfam02515 656024006801 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 656024006802 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006803 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 656024006804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024006805 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; cd00531 656024006806 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024006807 Helix-turn-helix domains; Region: HTH; cl00088 656024006808 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 656024006809 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006810 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024006811 Helix-turn-helix domains; Region: HTH; cl00088 656024006812 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 656024006813 Domain of unknown function DUF59; Region: DUF59; cl00941 656024006814 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 656024006815 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 656024006816 substrate binding site [chemical binding]; other site 656024006817 oxyanion hole (OAH) forming residues; other site 656024006818 trimer interface [polypeptide binding]; other site 656024006819 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 656024006820 active site 2 [active] 656024006821 active site 1 [active] 656024006822 thiolase; Provisional; Region: PRK06158 656024006823 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 656024006824 active site 656024006825 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 656024006826 DUF35 OB-fold domain; Region: DUF35; pfam01796 656024006827 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 656024006828 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 656024006829 active site 656024006830 enoyl-CoA hydratase; Provisional; Region: PRK09245 656024006831 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 656024006832 substrate binding site [chemical binding]; other site 656024006833 oxyanion hole (OAH) forming residues; other site 656024006834 trimer interface [polypeptide binding]; other site 656024006835 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 656024006836 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 656024006837 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 656024006838 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 656024006839 Ligand Binding Site [chemical binding]; other site 656024006840 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 656024006841 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 656024006842 dimer interface [polypeptide binding]; other site 656024006843 phosphorylation site [posttranslational modification] 656024006844 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 656024006845 ATP binding site [chemical binding]; other site 656024006846 Mg2+ binding site [ion binding]; other site 656024006847 G-X-G motif; other site 656024006848 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024006849 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 656024006850 Walker A/P-loop; other site 656024006851 ATP binding site [chemical binding]; other site 656024006852 Q-loop/lid; other site 656024006853 ABC transporter signature motif; other site 656024006854 Walker B; other site 656024006855 D-loop; other site 656024006856 H-loop/switch region; other site 656024006857 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024006858 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 656024006859 Walker A/P-loop; other site 656024006860 ATP binding site [chemical binding]; other site 656024006861 Q-loop/lid; other site 656024006862 ABC transporter signature motif; other site 656024006863 Walker B; other site 656024006864 D-loop; other site 656024006865 H-loop/switch region; other site 656024006866 Cobalt transport protein; Region: CbiQ; cl00463 656024006867 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 656024006868 PAS fold; Region: PAS_3; pfam08447 656024006869 putative active site [active] 656024006870 heme pocket [chemical binding]; other site 656024006871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024006872 metal binding site [ion binding]; metal-binding site 656024006873 active site 656024006874 I-site; other site 656024006875 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 656024006876 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 656024006877 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 656024006878 heme binding site [chemical binding]; other site 656024006879 ferroxidase pore; other site 656024006880 ferroxidase diiron center [ion binding]; other site 656024006881 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 656024006882 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 656024006883 active site 656024006884 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 656024006885 ligand binding site [chemical binding]; other site 656024006886 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 656024006887 active site 656024006888 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 656024006889 Di-iron ligands [ion binding]; other site 656024006890 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 656024006891 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006892 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 656024006893 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 656024006894 S-adenosylmethionine binding site [chemical binding]; other site 656024006895 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024006896 acyl-CoA synthetase; Validated; Region: PRK05850 656024006897 AMP-binding enzyme; Region: AMP-binding; cl15778 656024006898 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 656024006899 CoenzymeA binding site [chemical binding]; other site 656024006900 subunit interaction site [polypeptide binding]; other site 656024006901 PHB binding site; other site 656024006902 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024006903 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 656024006904 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024006905 nucleophilic elbow; other site 656024006906 catalytic triad; other site 656024006907 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 656024006908 Tetratricopeptide repeat; Region: TPR_10; pfam13374 656024006909 Helix-turn-helix domains; Region: HTH; cl00088 656024006910 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 656024006911 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 656024006912 RNA/DNA hybrid binding site [nucleotide binding]; other site 656024006913 active site 656024006914 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 656024006915 catalytic core [active] 656024006916 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 656024006917 Putative zinc ribbon domain; Region: DUF164; pfam02591 656024006918 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 656024006919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024006920 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024006921 Walker A/P-loop; other site 656024006922 ATP binding site [chemical binding]; other site 656024006923 Q-loop/lid; other site 656024006924 ABC transporter signature motif; other site 656024006925 Walker B; other site 656024006926 D-loop; other site 656024006927 H-loop/switch region; other site 656024006928 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 656024006929 Ligand binding site; other site 656024006930 Putative Catalytic site; other site 656024006931 DXD motif; other site 656024006932 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 656024006933 active site 656024006934 Helix-turn-helix domains; Region: HTH; cl00088 656024006935 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 656024006936 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 656024006937 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 656024006938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006939 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 656024006940 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 656024006941 active site 656024006942 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 656024006943 dimer interface [polypeptide binding]; other site 656024006944 active site 656024006945 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 656024006946 active site 656024006947 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 656024006948 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 656024006949 dimer interface [polypeptide binding]; other site 656024006950 active site 656024006951 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 656024006952 active site 2 [active] 656024006953 active site 1 [active] 656024006954 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024006955 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 656024006956 dimer interface [polypeptide binding]; other site 656024006957 active site 656024006958 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 656024006959 active site 2 [active] 656024006960 active site 1 [active] 656024006961 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 656024006962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024006963 NAD(P) binding site [chemical binding]; other site 656024006964 active site 656024006965 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024006966 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024006967 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024006968 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 656024006969 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006970 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024006971 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 656024006972 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 656024006973 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 656024006974 active site 656024006975 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 656024006976 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 656024006977 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024006978 active site 656024006979 HIGH motif; other site 656024006980 nucleotide binding site [chemical binding]; other site 656024006981 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 656024006982 active site 656024006983 KMSKS motif; other site 656024006984 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 656024006985 tRNA binding surface [nucleotide binding]; other site 656024006986 anticodon binding site; other site 656024006987 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 656024006988 DivIVA domain; Region: DivI1A_domain; TIGR03544 656024006989 Protein of unknown function (DUF552); Region: DUF552; cl00775 656024006990 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 656024006991 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 656024006992 catalytic residue [active] 656024006993 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 656024006994 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 656024006995 nucleotide binding site [chemical binding]; other site 656024006996 SulA interaction site; other site 656024006997 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 656024006998 cyclase homology domain; Region: CHD; cd07302 656024006999 nucleotidyl binding site; other site 656024007000 metal binding site [ion binding]; metal-binding site 656024007001 dimer interface [polypeptide binding]; other site 656024007002 Predicted ATPase [General function prediction only]; Region: COG3899 656024007003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007004 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 656024007005 PemK-like protein; Region: PemK; cl00995 656024007006 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024007007 phosphopeptide binding site; other site 656024007008 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 656024007009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007011 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 656024007012 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 656024007013 Helix-turn-helix domains; Region: HTH; cl00088 656024007014 HTH-like domain; Region: HTH_21; pfam13276 656024007015 Integrase core domain; Region: rve; cl01316 656024007016 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024007017 Integrase core domain; Region: rve; cl01316 656024007018 Putative catalytic domain of rhizobial NodB chitooligosaccharide N-deacetylase and its bacterial homologs; Region: CE4_NodB; cd10943 656024007019 NodB motif; other site 656024007020 putative active site [active] 656024007021 putative catalytic site [active] 656024007022 putative Zn binding site [ion binding]; other site 656024007023 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 656024007024 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 656024007025 DXD motif; other site 656024007026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007027 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 656024007028 Walker A/P-loop; other site 656024007029 ATP binding site [chemical binding]; other site 656024007030 Q-loop/lid; other site 656024007031 ABC transporter signature motif; other site 656024007032 Walker B; other site 656024007033 D-loop; other site 656024007034 H-loop/switch region; other site 656024007035 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024007036 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024007037 Integrase core domain; Region: rve; cl01316 656024007038 Proteins of 100 residues with WXG; Region: WXG100; cl02005 656024007039 RHS Repeat; Region: RHS_repeat; cl11982 656024007040 RHS Repeat; Region: RHS_repeat; cl11982 656024007041 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 656024007042 RHS Repeat; Region: RHS_repeat; cl11982 656024007043 RHS Repeat; Region: RHS_repeat; cl11982 656024007044 RHS Repeat; Region: RHS_repeat; cl11982 656024007045 RHS Repeat; Region: RHS_repeat; cl11982 656024007046 RHS Repeat; Region: RHS_repeat; cl11982 656024007047 RHS Repeat; Region: RHS_repeat; cl11982 656024007048 RHS Repeat; Region: RHS_repeat; cl11982 656024007049 RHS Repeat; Region: RHS_repeat; cl11982 656024007050 RHS protein; Region: RHS; pfam03527 656024007051 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 656024007052 Proteins of 100 residues with WXG; Region: WXG100; cl02005 656024007053 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024007054 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024007055 active site 656024007056 ATP binding site [chemical binding]; other site 656024007057 substrate binding site [chemical binding]; other site 656024007058 activation loop (A-loop); other site 656024007059 Domain of unknown function (DUF385); Region: DUF385; cl04387 656024007060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024007061 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 656024007062 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024007063 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 656024007064 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 656024007065 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 656024007066 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024007067 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 656024007068 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 656024007069 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 656024007070 active site 656024007071 homodimer interface [polypeptide binding]; other site 656024007072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007073 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 656024007074 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 656024007075 FAD binding domain; Region: FAD_binding_4; pfam01565 656024007076 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 656024007077 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 656024007078 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04690 656024007079 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 656024007080 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024007081 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 656024007082 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 656024007083 Mg++ binding site [ion binding]; other site 656024007084 putative catalytic motif [active] 656024007085 putative substrate binding site [chemical binding]; other site 656024007086 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 656024007087 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024007088 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 656024007089 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024007090 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 656024007091 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 656024007092 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 656024007093 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024007094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007095 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 656024007096 cell division protein MraZ; Reviewed; Region: PRK00326 656024007097 MraZ protein; Region: MraZ; pfam02381 656024007098 MraZ protein; Region: MraZ; pfam02381 656024007099 MoxR-like ATPases [General function prediction only]; Region: COG0714 656024007100 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 656024007101 Walker A motif; other site 656024007102 ATP binding site [chemical binding]; other site 656024007103 Walker B motif; other site 656024007104 arginine finger; other site 656024007105 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 656024007106 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 656024007107 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 656024007108 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 656024007109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007110 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 656024007111 Coenzyme A binding pocket [chemical binding]; other site 656024007112 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 656024007113 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 656024007114 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 656024007115 FAD binding site [chemical binding]; other site 656024007116 MoxR-like ATPases [General function prediction only]; Region: COG0714 656024007117 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 656024007118 Walker A motif; other site 656024007119 ATP binding site [chemical binding]; other site 656024007120 Walker B motif; other site 656024007121 arginine finger; other site 656024007122 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 656024007123 Aerotolerance regulator N-terminal; Region: BatA; cl06567 656024007124 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 656024007125 metal ion-dependent adhesion site (MIDAS); other site 656024007126 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 656024007127 DNA-binding site [nucleotide binding]; DNA binding site 656024007128 RNA-binding motif; other site 656024007129 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 656024007130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007131 Walker A/P-loop; other site 656024007132 ATP binding site [chemical binding]; other site 656024007133 Q-loop/lid; other site 656024007134 ABC transporter signature motif; other site 656024007135 Walker B; other site 656024007136 D-loop; other site 656024007137 H-loop/switch region; other site 656024007138 TOBE domain; Region: TOBE_2; cl01440 656024007139 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 656024007140 dimer interface [polypeptide binding]; other site 656024007141 conserved gate region; other site 656024007142 putative PBP binding loops; other site 656024007143 ABC-ATPase subunit interface; other site 656024007144 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 656024007145 DNA binding residues [nucleotide binding] 656024007146 TOBE domain; Region: TOBE_2; cl01440 656024007147 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 656024007148 thiamine phosphate binding site [chemical binding]; other site 656024007149 active site 656024007150 pyrophosphate binding site [ion binding]; other site 656024007151 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024007152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 656024007154 Protein of unknown function, DUF393; Region: DUF393; cl01136 656024007155 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024007156 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024007157 active site 656024007158 ATP binding site [chemical binding]; other site 656024007159 substrate binding site [chemical binding]; other site 656024007160 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024007161 activation loop (A-loop); other site 656024007162 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024007163 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024007164 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024007165 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 656024007166 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 656024007167 active site 656024007168 ADP/pyrophosphate binding site [chemical binding]; other site 656024007169 dimerization interface [polypeptide binding]; other site 656024007170 allosteric effector site; other site 656024007171 fructose-1,6-bisphosphate binding site; other site 656024007172 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 656024007173 putative acyl-acceptor binding pocket; other site 656024007174 Esterase/lipase [General function prediction only]; Region: COG1647 656024007175 TIGR00300 family protein; Region: TIGR00300 656024007176 LOR/SDH bifunctional enzyme conserved region; Region: Saccharop_dh_N; pfam04455 656024007177 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 656024007178 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 656024007179 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 656024007180 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 656024007181 DTAP/Switch II; other site 656024007182 Switch I; other site 656024007183 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 656024007184 putative hydrophobic ligand binding site [chemical binding]; other site 656024007185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024007186 active site 656024007187 metal binding site [ion binding]; metal-binding site 656024007188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 656024007189 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 656024007190 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 656024007191 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024007192 putative active site [active] 656024007193 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 656024007194 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 656024007195 putative active site [active] 656024007196 homotetrameric interface [polypeptide binding]; other site 656024007197 metal binding site [ion binding]; metal-binding site 656024007198 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 656024007199 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 656024007200 non-specific DNA binding site [nucleotide binding]; other site 656024007201 salt bridge; other site 656024007202 sequence-specific DNA binding site [nucleotide binding]; other site 656024007203 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 656024007204 YacP-like NYN domain; Region: NYN_YacP; cl01491 656024007205 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 656024007206 nucleotide binding site/active site [active] 656024007207 HIT family signature motif; other site 656024007208 catalytic residue [active] 656024007209 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 656024007210 active site 656024007211 metal binding site [ion binding]; metal-binding site 656024007212 hypothetical protein; Validated; Region: PRK07883 656024007213 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 656024007214 active site 656024007215 substrate binding site [chemical binding]; other site 656024007216 catalytic site [active] 656024007217 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 656024007218 GIY-YIG motif/motif A; other site 656024007219 active site 656024007220 catalytic site [active] 656024007221 putative DNA binding site [nucleotide binding]; other site 656024007222 metal binding site [ion binding]; metal-binding site 656024007223 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024007224 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024007225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007226 Walker A/P-loop; other site 656024007227 ATP binding site [chemical binding]; other site 656024007228 Q-loop/lid; other site 656024007229 ABC transporter signature motif; other site 656024007230 Walker B; other site 656024007231 D-loop; other site 656024007232 H-loop/switch region; other site 656024007233 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 656024007234 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 656024007235 heme bH binding site [chemical binding]; other site 656024007236 intrachain domain interface; other site 656024007237 heme bL binding site [chemical binding]; other site 656024007238 interchain domain interface [polypeptide binding]; other site 656024007239 Qo binding site; other site 656024007240 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 656024007241 iron-sulfur cluster [ion binding]; other site 656024007242 [2Fe-2S] cluster binding site [ion binding]; other site 656024007243 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 656024007244 Cytochrome c; Region: Cytochrom_C; cl11414 656024007245 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 656024007246 Subunit I/III interface [polypeptide binding]; other site 656024007247 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 656024007248 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 656024007249 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 656024007250 binuclear metal center [ion binding]; other site 656024007251 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 656024007252 metal binding site 2 [ion binding]; metal-binding site 656024007253 putative DNA binding helix; other site 656024007254 metal binding site 1 [ion binding]; metal-binding site 656024007255 dimer interface [polypeptide binding]; other site 656024007256 structural Zn2+ binding site [ion binding]; other site 656024007257 Response regulator receiver domain; Region: Response_reg; pfam00072 656024007258 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 656024007259 active site 656024007260 phosphorylation site [posttranslational modification] 656024007261 intermolecular recognition site; other site 656024007262 dimerization interface [polypeptide binding]; other site 656024007263 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 656024007264 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 656024007265 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 656024007266 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 656024007267 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 656024007268 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 656024007269 D-pathway; other site 656024007270 Putative ubiquinol binding site [chemical binding]; other site 656024007271 Low-spin heme (heme b) binding site [chemical binding]; other site 656024007272 Putative water exit pathway; other site 656024007273 Binuclear center (heme o3/CuB) [ion binding]; other site 656024007274 K-pathway; other site 656024007275 Putative proton exit pathway; other site 656024007276 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 656024007277 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 656024007278 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024007279 putative active site [active] 656024007280 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024007281 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 656024007282 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 656024007283 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024007284 catalytic residue [active] 656024007285 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 656024007286 CPxP motif; other site 656024007287 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 656024007288 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 656024007289 substrate binding site [chemical binding]; other site 656024007290 ATP binding site [chemical binding]; other site 656024007291 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 656024007292 Quinolinate synthetase A protein; Region: NadA; cl00420 656024007293 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 656024007294 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024007295 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 656024007296 active site 656024007297 catalytic tetrad [active] 656024007298 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024007299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024007300 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 656024007301 homotrimer interface [polypeptide binding]; other site 656024007302 Walker A motif; other site 656024007303 GTP binding site [chemical binding]; other site 656024007304 Walker B motif; other site 656024007305 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 656024007306 nucleoside/Zn binding site; other site 656024007307 dimer interface [polypeptide binding]; other site 656024007308 catalytic motif [active] 656024007309 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024007310 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024007311 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 656024007312 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 656024007313 active site 656024007314 non-prolyl cis peptide bond; other site 656024007315 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024007316 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 656024007317 non-specific DNA binding site [nucleotide binding]; other site 656024007318 salt bridge; other site 656024007319 sequence-specific DNA binding site [nucleotide binding]; other site 656024007320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007321 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 656024007322 NAD(P) binding site [chemical binding]; other site 656024007323 active site 656024007324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024007325 Helix-turn-helix domains; Region: HTH; cl00088 656024007326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024007327 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 656024007328 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 656024007329 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 656024007330 active site pocket [active] 656024007331 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 656024007332 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 656024007333 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 656024007334 Cytosol aminopeptidase family, N-terminal domain; Region: Peptidase_M17_N; pfam02789 656024007335 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 656024007336 interface (dimer of trimers) [polypeptide binding]; other site 656024007337 Substrate-binding/catalytic site; other site 656024007338 Zn-binding sites [ion binding]; other site 656024007339 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 656024007340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024007341 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 656024007342 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 656024007343 E3 interaction surface; other site 656024007344 lipoyl attachment site [posttranslational modification]; other site 656024007345 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 656024007346 e3 binding domain; Region: E3_binding; pfam02817 656024007347 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 656024007348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007349 TIGR01777 family protein; Region: yfcH 656024007350 NAD(P) binding site [chemical binding]; other site 656024007351 active site 656024007352 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024007353 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 656024007354 active site pocket [active] 656024007355 oxyanion hole [active] 656024007356 catalytic triad [active] 656024007357 active site nucleophile [active] 656024007358 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 656024007359 lipoyl synthase; Provisional; Region: PRK05481 656024007360 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 656024007361 FeS/SAM binding site; other site 656024007362 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 656024007363 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024007364 RDD family; Region: RDD; cl00746 656024007365 glutamine synthetase, type I; Region: GlnA; TIGR00653 656024007366 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 656024007367 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 656024007368 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 656024007369 glutamine synthetase; Region: PLN02284 656024007370 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 656024007371 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 656024007372 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 656024007373 metal binding triad; other site 656024007374 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 656024007375 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 656024007376 metal binding triad; other site 656024007377 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 656024007378 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 656024007379 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 656024007380 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 656024007381 NAD synthetase; Provisional; Region: PRK13981 656024007382 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 656024007383 multimer interface [polypeptide binding]; other site 656024007384 active site 656024007385 catalytic triad [active] 656024007386 protein interface 1 [polypeptide binding]; other site 656024007387 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 656024007388 homodimer interface [polypeptide binding]; other site 656024007389 NAD binding pocket [chemical binding]; other site 656024007390 ATP binding pocket [chemical binding]; other site 656024007391 Mg binding site [ion binding]; other site 656024007392 active-site loop [active] 656024007393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024007394 Helix-turn-helix domains; Region: HTH; cl00088 656024007395 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 656024007396 oligomerization interface [polypeptide binding]; other site 656024007397 active site 656024007398 metal binding site [ion binding]; metal-binding site 656024007399 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 656024007400 Helix-turn-helix domains; Region: HTH; cl00088 656024007401 putative transposase OrfB; Reviewed; Region: PHA02517 656024007402 HTH-like domain; Region: HTH_21; pfam13276 656024007403 Integrase core domain; Region: rve; cl01316 656024007404 Integrase core domain; Region: rve_3; cl15866 656024007405 Helix-turn-helix domains; Region: HTH; cl00088 656024007406 putative transposase OrfB; Reviewed; Region: PHA02517 656024007407 HTH-like domain; Region: HTH_21; pfam13276 656024007408 Integrase core domain; Region: rve; cl01316 656024007409 Integrase core domain; Region: rve_3; cl15866 656024007410 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 656024007411 intersubunit interface [polypeptide binding]; other site 656024007412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007413 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 656024007414 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 656024007415 DNA binding site [nucleotide binding] 656024007416 Int/Topo IB signature motif; other site 656024007417 active site 656024007418 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 656024007419 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 656024007420 dimer interface [polypeptide binding]; other site 656024007421 ADP-ribose binding site [chemical binding]; other site 656024007422 active site 656024007423 nudix motif; other site 656024007424 metal binding site [ion binding]; metal-binding site 656024007425 CTP synthetase; Validated; Region: pyrG; PRK05380 656024007426 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 656024007427 Catalytic site [active] 656024007428 active site 656024007429 UTP binding site [chemical binding]; other site 656024007430 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 656024007431 active site 656024007432 putative oxyanion hole; other site 656024007433 catalytic triad [active] 656024007434 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 656024007435 putative FMN binding site [chemical binding]; other site 656024007436 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 656024007437 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 656024007438 Walker A/P-loop; other site 656024007439 ATP binding site [chemical binding]; other site 656024007440 Q-loop/lid; other site 656024007441 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 656024007442 ABC transporter signature motif; other site 656024007443 Walker B; other site 656024007444 D-loop; other site 656024007445 H-loop/switch region; other site 656024007446 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 656024007447 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 656024007448 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 656024007449 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 656024007450 S-adenosylmethionine binding site [chemical binding]; other site 656024007451 SCP-2 sterol transfer family; Region: SCP2; cl01225 656024007452 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 656024007453 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024007454 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024007455 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 656024007456 binding surface 656024007457 TPR motif; other site 656024007458 Tetratricopeptide repeat; Region: TPR_16; pfam13432 656024007459 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 656024007460 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024007461 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 656024007462 putative NAD(P) binding site [chemical binding]; other site 656024007463 Helix-turn-helix domains; Region: HTH; cl00088 656024007464 Helix-turn-helix domains; Region: HTH; cl00088 656024007465 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 656024007466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007467 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 656024007468 argininosuccinate lyase; Provisional; Region: PRK00855 656024007469 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 656024007470 active sites [active] 656024007471 tetramer interface [polypeptide binding]; other site 656024007472 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 656024007473 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 656024007474 ANP binding site [chemical binding]; other site 656024007475 Substrate Binding Site II [chemical binding]; other site 656024007476 Substrate Binding Site I [chemical binding]; other site 656024007477 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 656024007478 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 656024007479 ornithine carbamoyltransferase; Provisional; Region: PRK00779 656024007480 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 656024007481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007482 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 656024007483 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 656024007484 inhibitor-cofactor binding pocket; inhibition site 656024007485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024007486 catalytic residue [active] 656024007487 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 656024007488 feedback inhibition sensing region; other site 656024007489 homohexameric interface [polypeptide binding]; other site 656024007490 nucleotide binding site [chemical binding]; other site 656024007491 N-acetyl-L-glutamate binding site [chemical binding]; other site 656024007492 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 656024007493 heterotetramer interface [polypeptide binding]; other site 656024007494 active site pocket [active] 656024007495 cleavage site 656024007496 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 656024007497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007498 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 656024007499 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 656024007500 Protein of unknown function (DUF692); Region: DUF692; cl01263 656024007501 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 656024007502 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 656024007503 putative tRNA-binding site [nucleotide binding]; other site 656024007504 B3/4 domain; Region: B3_4; cl11458 656024007505 tRNA synthetase B5 domain; Region: B5; cl08394 656024007506 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 656024007507 dimer interface [polypeptide binding]; other site 656024007508 motif 1; other site 656024007509 motif 3; other site 656024007510 motif 2; other site 656024007511 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 656024007512 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 656024007513 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 656024007514 dimer interface [polypeptide binding]; other site 656024007515 motif 1; other site 656024007516 active site 656024007517 motif 2; other site 656024007518 motif 3; other site 656024007519 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 656024007520 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 656024007521 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 656024007522 dimer interface [polypeptide binding]; other site 656024007523 phosphorylation site [posttranslational modification] 656024007524 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 656024007525 ATP binding site [chemical binding]; other site 656024007526 Mg2+ binding site [ion binding]; other site 656024007527 G-X-G motif; other site 656024007528 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 656024007529 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 656024007530 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 656024007531 ribosomal protein L20; Region: rpl20; CHL00068 656024007532 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 656024007533 23S rRNA binding site [nucleotide binding]; other site 656024007534 L21 binding site [polypeptide binding]; other site 656024007535 L13 binding site [polypeptide binding]; other site 656024007536 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 656024007537 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 656024007538 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 656024007539 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 656024007540 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 656024007541 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 656024007542 Sulfatase; Region: Sulfatase; cl10460 656024007543 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 656024007544 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 656024007545 D-galactonate transporter; Region: 2A0114; TIGR00893 656024007546 putative substrate translocation pore; other site 656024007547 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 656024007548 Helix-turn-helix domains; Region: HTH; cl00088 656024007549 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 656024007550 homopentamer interface [polypeptide binding]; other site 656024007551 active site 656024007552 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 656024007553 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 656024007554 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 656024007555 dimerization interface [polypeptide binding]; other site 656024007556 active site 656024007557 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 656024007558 Lumazine binding domain; Region: Lum_binding; pfam00677 656024007559 Lumazine binding domain; Region: Lum_binding; pfam00677 656024007560 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 656024007561 catalytic motif [active] 656024007562 Zn binding site [ion binding]; other site 656024007563 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 656024007564 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 656024007565 substrate binding site [chemical binding]; other site 656024007566 hexamer interface [polypeptide binding]; other site 656024007567 metal binding site [ion binding]; metal-binding site 656024007568 S-adenosyl methyltransferase; Region: Methyltransf_19; pfam04672 656024007569 Leucine carboxyl methyltransferase; Region: LCM; cl01306 656024007570 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 656024007571 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 656024007572 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; cl15754 656024007573 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 656024007574 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 656024007575 putative active site [active] 656024007576 substrate binding site [chemical binding]; other site 656024007577 putative cosubstrate binding site; other site 656024007578 catalytic site [active] 656024007579 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 656024007580 substrate binding site [chemical binding]; other site 656024007581 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 656024007582 active site 656024007583 catalytic residues [active] 656024007584 metal binding site [ion binding]; metal-binding site 656024007585 primosome assembly protein PriA; Provisional; Region: PRK14873 656024007586 primosome assembly protein PriA; Provisional; Region: PRK14873 656024007587 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 656024007588 S-adenosylmethionine synthetase; Validated; Region: PRK05250 656024007589 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 656024007590 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 656024007591 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 656024007592 Flavoprotein; Region: Flavoprotein; cl08021 656024007593 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 656024007594 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 656024007595 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 656024007596 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 656024007597 catalytic site [active] 656024007598 G-X2-G-X-G-K; other site 656024007599 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 656024007600 active site 656024007601 dimer interface [polypeptide binding]; other site 656024007602 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 656024007603 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024007604 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024007605 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 656024007606 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 656024007607 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024007608 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 656024007609 IMP binding site; other site 656024007610 dimer interface [polypeptide binding]; other site 656024007611 interdomain contacts; other site 656024007612 partial ornithine binding site; other site 656024007613 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 656024007614 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 656024007615 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 656024007616 catalytic site [active] 656024007617 subunit interface [polypeptide binding]; other site 656024007618 dihydroorotase; Provisional; Region: PRK04250 656024007619 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 656024007620 active site 656024007621 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 656024007622 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 656024007623 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 656024007624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024007626 active site 656024007627 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 656024007628 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 656024007629 non-specific DNA binding site [nucleotide binding]; other site 656024007630 salt bridge; other site 656024007631 sequence-specific DNA binding site [nucleotide binding]; other site 656024007632 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 656024007633 putative RNA binding site [nucleotide binding]; other site 656024007634 elongation factor P; Validated; Region: PRK00529 656024007635 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 656024007636 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 656024007637 RNA binding site [nucleotide binding]; other site 656024007638 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 656024007639 RNA binding site [nucleotide binding]; other site 656024007640 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 656024007641 trimer interface [polypeptide binding]; other site 656024007642 active site 656024007643 dimer interface [polypeptide binding]; other site 656024007644 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 656024007645 active site 656024007646 dimer interface [polypeptide binding]; other site 656024007647 metal binding site [ion binding]; metal-binding site 656024007648 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 656024007649 ADP binding site [chemical binding]; other site 656024007650 magnesium binding site [ion binding]; other site 656024007651 putative shikimate binding site; other site 656024007652 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 656024007653 Tetramer interface [polypeptide binding]; other site 656024007654 active site 656024007655 FMN-binding site [chemical binding]; other site 656024007656 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 656024007657 YceG-like family; Region: YceG; pfam02618 656024007658 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 656024007659 dimerization interface [polypeptide binding]; other site 656024007660 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 656024007661 recombination factor protein RarA; Reviewed; Region: PRK13342 656024007662 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 656024007663 Walker A motif; other site 656024007664 ATP binding site [chemical binding]; other site 656024007665 Walker B motif; other site 656024007666 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 656024007667 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 656024007668 Helix-turn-helix domains; Region: HTH; cl00088 656024007669 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 656024007670 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 656024007671 FMN-binding pocket [chemical binding]; other site 656024007672 flavin binding motif; other site 656024007673 phosphate binding motif [ion binding]; other site 656024007674 beta-alpha-beta structure motif; other site 656024007675 NAD binding pocket [chemical binding]; other site 656024007676 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 656024007677 catalytic loop [active] 656024007678 iron binding site [ion binding]; other site 656024007679 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 656024007680 putative active site [active] 656024007681 putative substrate binding site [chemical binding]; other site 656024007682 ATP binding site [chemical binding]; other site 656024007683 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024007684 classical (c) SDRs; Region: SDR_c; cd05233 656024007685 NAD(P) binding site [chemical binding]; other site 656024007686 active site 656024007687 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 656024007688 AMP-binding enzyme; Region: AMP-binding; cl15778 656024007689 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024007690 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 656024007691 tellurium resistance terB-like protein; Region: terB_like; cl11965 656024007692 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024007693 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024007694 active site 656024007695 Winged helix-turn helix; Region: HTH_29; pfam13551 656024007696 Integrase core domain; Region: rve; cl01316 656024007697 GAF domain; Region: GAF_2; pfam13185 656024007698 GAF domain; Region: GAF; cl15785 656024007699 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 656024007700 Helix-turn-helix domains; Region: HTH; cl00088 656024007701 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 656024007702 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 656024007703 ligand binding site [chemical binding]; other site 656024007704 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 656024007705 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 656024007706 Walker A/P-loop; other site 656024007707 ATP binding site [chemical binding]; other site 656024007708 Q-loop/lid; other site 656024007709 ABC transporter signature motif; other site 656024007710 Walker B; other site 656024007711 D-loop; other site 656024007712 H-loop/switch region; other site 656024007713 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 656024007714 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 656024007715 TM-ABC transporter signature motif; other site 656024007716 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 656024007717 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 656024007718 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 656024007719 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 656024007720 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 656024007721 generic binding surface I; other site 656024007722 generic binding surface II; other site 656024007723 Uncharacterized conserved protein (DUF2277); Region: DUF2277; cl02349 656024007724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007725 NAD(P) binding site [chemical binding]; other site 656024007726 active site 656024007727 Archaeal ATPase; Region: Arch_ATPase; pfam01637 656024007728 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 656024007729 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 656024007730 active site 656024007731 phosphorylation site [posttranslational modification] 656024007732 intermolecular recognition site; other site 656024007733 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024007734 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 656024007735 active site 656024007736 phosphorylation site [posttranslational modification] 656024007737 intermolecular recognition site; other site 656024007738 dimerization interface [polypeptide binding]; other site 656024007739 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 656024007740 DNA binding residues [nucleotide binding] 656024007741 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 656024007742 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 656024007743 Sulfatase; Region: Sulfatase; cl10460 656024007744 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 656024007745 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 656024007746 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 656024007747 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 656024007748 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 656024007749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024007750 NAD(P) binding site [chemical binding]; other site 656024007751 active site 656024007752 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 656024007753 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 656024007754 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 656024007755 dimer interface [polypeptide binding]; other site 656024007756 conserved gate region; other site 656024007757 putative PBP binding loops; other site 656024007758 ABC-ATPase subunit interface; other site 656024007759 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 656024007760 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 656024007761 dimer interface [polypeptide binding]; other site 656024007762 conserved gate region; other site 656024007763 putative PBP binding loops; other site 656024007764 ABC-ATPase subunit interface; other site 656024007765 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 656024007766 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 656024007767 Walker A/P-loop; other site 656024007768 ATP binding site [chemical binding]; other site 656024007769 Q-loop/lid; other site 656024007770 ABC transporter signature motif; other site 656024007771 Walker B; other site 656024007772 D-loop; other site 656024007773 H-loop/switch region; other site 656024007774 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024007775 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 656024007776 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 656024007777 Walker A/P-loop; other site 656024007778 ATP binding site [chemical binding]; other site 656024007779 Q-loop/lid; other site 656024007780 ABC transporter signature motif; other site 656024007781 Walker B; other site 656024007782 D-loop; other site 656024007783 H-loop/switch region; other site 656024007784 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024007785 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024007786 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 656024007787 putative NAD(P) binding site [chemical binding]; other site 656024007788 Cation efflux family; Region: Cation_efflux; cl00316 656024007789 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 656024007790 putative DNA binding site [nucleotide binding]; other site 656024007791 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 656024007792 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 656024007793 intersubunit interface [polypeptide binding]; other site 656024007794 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 656024007795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007796 Walker A/P-loop; other site 656024007797 ATP binding site [chemical binding]; other site 656024007798 Q-loop/lid; other site 656024007799 ABC transporter signature motif; other site 656024007800 Walker B; other site 656024007801 D-loop; other site 656024007802 H-loop/switch region; other site 656024007803 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 656024007804 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 656024007805 Helix-turn-helix domains; Region: HTH; cl00088 656024007806 putative transposase OrfB; Reviewed; Region: PHA02517 656024007807 HTH-like domain; Region: HTH_21; pfam13276 656024007808 Integrase core domain; Region: rve; cl01316 656024007809 Integrase core domain; Region: rve_3; cl15866 656024007810 Helix-turn-helix domains; Region: HTH; cl00088 656024007811 putative DNA binding helix; other site 656024007812 metal binding site 2 [ion binding]; metal-binding site 656024007813 metal binding site 1 [ion binding]; metal-binding site 656024007814 structural Zn2+ binding site [ion binding]; other site 656024007815 Transposase, Mutator family; Region: Transposase_mut; pfam00872 656024007816 MULE transposase domain; Region: MULE; pfam10551 656024007817 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 656024007818 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 656024007819 structural tetrad; other site 656024007820 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 656024007821 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 656024007822 P-loop, Walker A motif; other site 656024007823 Base recognition motif; other site 656024007824 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 656024007825 PemK-like protein; Region: PemK; cl00995 656024007826 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 656024007827 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 656024007828 active site 656024007829 dimer interface [polypeptide binding]; other site 656024007830 non-prolyl cis peptide bond; other site 656024007831 insertion regions; other site 656024007832 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 656024007833 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024007834 active site 656024007835 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024007836 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 656024007837 active site 656024007838 Helix-turn-helix domains; Region: HTH; cl00088 656024007839 Winged helix-turn helix; Region: HTH_29; pfam13551 656024007840 Helix-turn-helix domains; Region: HTH; cl00088 656024007841 Integrase core domain; Region: rve; cl01316 656024007842 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024007843 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 656024007844 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 656024007845 active site 656024007846 dimer interface [polypeptide binding]; other site 656024007847 non-prolyl cis peptide bond; other site 656024007848 insertion regions; other site 656024007849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 656024007850 Helix-turn-helix domains; Region: HTH; cl00088 656024007851 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 656024007852 dimerization interface [polypeptide binding]; other site 656024007853 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 656024007854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024007855 Helix-turn-helix domains; Region: HTH; cl00088 656024007856 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 656024007857 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 656024007858 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024007859 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 656024007860 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 656024007861 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024007862 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 656024007863 anti sigma factor interaction site; other site 656024007864 regulatory phosphorylation site [posttranslational modification]; other site 656024007865 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 656024007866 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 656024007867 putative substrate translocation pore; other site 656024007868 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 656024007869 putative substrate translocation pore; other site 656024007870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 656024007871 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 656024007872 Probable transposase; Region: OrfB_IS605; pfam01385 656024007873 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 656024007874 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024007875 Helix-turn-helix domains; Region: HTH; cl00088 656024007876 TIR domain; Region: TIR_2; cl15770 656024007877 NB-ARC domain; Region: NB-ARC; pfam00931 656024007878 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024007879 Transcriptional regulators [Transcription]; Region: MarR; COG1846 656024007880 Helix-turn-helix domains; Region: HTH; cl00088 656024007881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007882 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 656024007883 Walker A/P-loop; other site 656024007884 ATP binding site [chemical binding]; other site 656024007885 Q-loop/lid; other site 656024007886 ABC transporter signature motif; other site 656024007887 Walker B; other site 656024007888 D-loop; other site 656024007889 H-loop/switch region; other site 656024007890 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024007891 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 656024007892 Predicted ATPase [General function prediction only]; Region: COG3903 656024007893 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024007894 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 656024007895 active site 656024007896 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 656024007897 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 656024007898 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 656024007899 putative active site [active] 656024007900 putative substrate binding site [chemical binding]; other site 656024007901 putative cosubstrate binding site; other site 656024007902 catalytic site [active] 656024007903 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 656024007904 active site 656024007905 PemK-like protein; Region: PemK; cl00995 656024007906 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024007907 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024007908 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024007909 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024007910 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024007911 active site 656024007912 ATP binding site [chemical binding]; other site 656024007913 substrate binding site [chemical binding]; other site 656024007914 activation loop (A-loop); other site 656024007915 RDD family; Region: RDD; cl00746 656024007916 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 656024007917 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 656024007918 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 656024007919 putative active site [active] 656024007920 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 656024007921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007922 Walker A/P-loop; other site 656024007923 ATP binding site [chemical binding]; other site 656024007924 Q-loop/lid; other site 656024007925 ABC transporter signature motif; other site 656024007926 Walker B; other site 656024007927 D-loop; other site 656024007928 H-loop/switch region; other site 656024007929 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 656024007930 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 656024007931 dimerization interface [polypeptide binding]; other site 656024007932 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 656024007933 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 656024007934 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 656024007935 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 656024007936 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 656024007937 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 656024007938 active site 656024007939 metal binding site [ion binding]; metal-binding site 656024007940 hexamer interface [polypeptide binding]; other site 656024007941 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 656024007942 dimer interface [polypeptide binding]; other site 656024007943 conserved gate region; other site 656024007944 ABC-ATPase subunit interface; other site 656024007945 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 656024007946 dimer interface [polypeptide binding]; other site 656024007947 conserved gate region; other site 656024007948 putative PBP binding loops; other site 656024007949 ABC-ATPase subunit interface; other site 656024007950 Helix-turn-helix domains; Region: HTH; cl00088 656024007951 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 656024007952 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 656024007953 putative active site [active] 656024007954 putative FMN binding site [chemical binding]; other site 656024007955 putative substrate binding site [chemical binding]; other site 656024007956 putative catalytic residue [active] 656024007957 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 656024007958 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 656024007959 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 656024007960 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 656024007961 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 656024007962 Protein of unknown function DUF72; Region: DUF72; cl00777 656024007963 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 656024007964 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 656024007965 dimer interface [polypeptide binding]; other site 656024007966 active site 656024007967 heme binding site [chemical binding]; other site 656024007968 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 656024007969 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 656024007970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024007971 Helix-turn-helix domains; Region: HTH; cl00088 656024007972 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 656024007973 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 656024007974 NAD binding site [chemical binding]; other site 656024007975 homotetramer interface [polypeptide binding]; other site 656024007976 homodimer interface [polypeptide binding]; other site 656024007977 active site 656024007978 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 656024007979 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 656024007980 dimer interface [polypeptide binding]; other site 656024007981 active site 656024007982 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 656024007983 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 656024007984 Protein of unknown function (DUF779); Region: DUF779; cl01432 656024007985 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 656024007986 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 656024007987 NAD(P) binding site [chemical binding]; other site 656024007988 catalytic residues [active] 656024007989 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 656024007990 Helix-turn-helix domains; Region: HTH; cl00088 656024007991 TIR domain; Region: TIR_2; cl15770 656024007992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024007993 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024007994 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 656024007995 binding surface 656024007996 TPR motif; other site 656024007997 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024007998 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 656024007999 binding surface 656024008000 TPR motif; other site 656024008001 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008002 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 656024008003 binding surface 656024008004 TPR motif; other site 656024008005 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008006 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 656024008007 binding surface 656024008008 TPR motif; other site 656024008009 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008010 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008012 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 656024008013 binding surface 656024008014 TPR motif; other site 656024008015 Tetratricopeptide repeat; Region: TPR_12; pfam13424 656024008016 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 656024008017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008018 Walker A/P-loop; other site 656024008019 ATP binding site [chemical binding]; other site 656024008020 Q-loop/lid; other site 656024008021 ABC transporter signature motif; other site 656024008022 Walker B; other site 656024008023 D-loop; other site 656024008024 H-loop/switch region; other site 656024008025 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024008026 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024008027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008028 Walker A/P-loop; other site 656024008029 ATP binding site [chemical binding]; other site 656024008030 Q-loop/lid; other site 656024008031 ABC transporter signature motif; other site 656024008032 Walker B; other site 656024008033 D-loop; other site 656024008034 H-loop/switch region; other site 656024008035 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 656024008036 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 656024008037 active site 656024008038 phosphorylation site [posttranslational modification] 656024008039 intermolecular recognition site; other site 656024008040 dimerization interface [polypeptide binding]; other site 656024008041 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 656024008042 DNA binding site [nucleotide binding] 656024008043 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 656024008044 Uncharacterized conserved protein [Function unknown]; Region: COG2898 656024008045 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 656024008046 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 656024008047 Helix-turn-helix domains; Region: HTH; cl00088 656024008048 Winged helix-turn helix; Region: HTH_29; pfam13551 656024008049 Helix-turn-helix domains; Region: HTH; cl00088 656024008050 Integrase core domain; Region: rve; cl01316 656024008051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024008052 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 656024008053 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024008054 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024008055 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024008056 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 656024008057 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 656024008058 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 656024008059 Protein of unknown function DUF86; Region: DUF86; cl01031 656024008060 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 656024008061 active site 656024008062 NTP binding site [chemical binding]; other site 656024008063 metal binding triad [ion binding]; metal-binding site 656024008064 antibiotic binding site [chemical binding]; other site 656024008065 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 656024008066 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 656024008067 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 656024008068 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 656024008069 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 656024008070 Major Facilitator Superfamily; Region: MFS_1; pfam07690 656024008071 putative substrate translocation pore; other site 656024008072 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 656024008073 Helix-turn-helix domain; Region: HTH_18; pfam12833 656024008074 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 656024008075 Protein of unknown function DUF86; Region: DUF86; cl01031 656024008076 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 656024008077 putative transposase OrfB; Reviewed; Region: PHA02517 656024008078 HTH-like domain; Region: HTH_21; pfam13276 656024008079 Integrase core domain; Region: rve; cl01316 656024008080 Integrase core domain; Region: rve_3; cl15866 656024008081 Helix-turn-helix domains; Region: HTH; cl00088 656024008082 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 656024008083 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 656024008084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 656024008085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 656024008086 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024008087 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 656024008088 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 656024008089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008090 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 656024008091 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024008092 nudix motif; other site 656024008093 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024008094 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024008095 Integrase core domain; Region: rve; cl01316 656024008096 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 656024008097 CoenzymeA binding site [chemical binding]; other site 656024008098 subunit interaction site [polypeptide binding]; other site 656024008099 PHB binding site; other site 656024008100 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 656024008101 dimerization interface [polypeptide binding]; other site 656024008102 putative DNA binding site [nucleotide binding]; other site 656024008103 putative Zn2+ binding site [ion binding]; other site 656024008104 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 656024008105 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 656024008106 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 656024008107 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 656024008108 PAS domain; Region: PAS_9; pfam13426 656024008109 PAS fold; Region: PAS_4; pfam08448 656024008110 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 656024008111 putative active site [active] 656024008112 heme pocket [chemical binding]; other site 656024008113 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 656024008114 GAF domain; Region: GAF; cl15785 656024008115 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024008116 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 656024008117 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 656024008118 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 656024008119 ATP binding site [chemical binding]; other site 656024008120 putative Mg++ binding site [ion binding]; other site 656024008121 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 656024008122 nucleotide binding region [chemical binding]; other site 656024008123 ATP-binding site [chemical binding]; other site 656024008124 Helicase associated domain (HA2); Region: HA2; cl04503 656024008125 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 656024008126 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 656024008127 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024008128 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 656024008129 active site 656024008130 catalytic tetrad [active] 656024008131 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024008132 putative active site [active] 656024008133 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 656024008134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 656024008135 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 656024008136 putative active site [active] 656024008137 putative metal binding site [ion binding]; other site 656024008138 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024008139 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024008140 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 656024008141 non-specific DNA binding site [nucleotide binding]; other site 656024008142 salt bridge; other site 656024008143 sequence-specific DNA binding site [nucleotide binding]; other site 656024008144 TIGR03085 family protein; Region: TIGR03085 656024008145 Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence...; Region: CHROMO; cl15261 656024008146 CCC1-related family of proteins; Region: CCC1_like; cl00278 656024008147 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 656024008148 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024008149 active site 656024008150 metal binding site [ion binding]; metal-binding site 656024008151 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 656024008152 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 656024008153 active site 656024008154 short chain dehydrogenase; Provisional; Region: PRK07062 656024008155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008156 NAD(P) binding site [chemical binding]; other site 656024008157 active site 656024008158 chaperone protein DnaJ; Provisional; Region: PRK10767 656024008159 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 656024008160 HSP70 interaction site [polypeptide binding]; other site 656024008161 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 656024008162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008163 Sulfate transporter family; Region: Sulfate_transp; cl15842 656024008164 Sulfate transporter family; Region: Sulfate_transp; cl15842 656024008165 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 656024008166 active site clefts [active] 656024008167 zinc binding site [ion binding]; other site 656024008168 dimer interface [polypeptide binding]; other site 656024008169 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 656024008170 putative active site [active] 656024008171 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 656024008172 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 656024008173 motif 1; other site 656024008174 active site 656024008175 motif 2; other site 656024008176 motif 3; other site 656024008177 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 656024008178 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 656024008179 Chain length determinant protein; Region: Wzz; cl15801 656024008180 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 656024008181 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 656024008182 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 656024008183 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 656024008184 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 656024008185 NAD(P) binding site [chemical binding]; other site 656024008186 homodimer interface [polypeptide binding]; other site 656024008187 substrate binding site [chemical binding]; other site 656024008188 active site 656024008189 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 656024008190 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 656024008191 N-acetyl-D-glucosamine binding site [chemical binding]; other site 656024008192 catalytic residue [active] 656024008193 Helix-turn-helix domains; Region: HTH; cl00088 656024008194 Acyl transferase domain; Region: Acyl_transf_1; cl08282 656024008195 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 656024008196 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 656024008197 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 656024008198 dimer interface [polypeptide binding]; other site 656024008199 active site 656024008200 CoA binding pocket [chemical binding]; other site 656024008201 Phosphopantetheine attachment site; Region: PP-binding; cl09936 656024008202 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 656024008203 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 656024008204 dimer interface [polypeptide binding]; other site 656024008205 active site 656024008206 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 656024008207 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 656024008208 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 656024008209 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 656024008210 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 656024008211 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 656024008212 homodimer interface [polypeptide binding]; other site 656024008213 substrate-cofactor binding pocket; other site 656024008214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024008215 catalytic residue [active] 656024008216 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 656024008217 Walker A motif; other site 656024008218 ATP binding site [chemical binding]; other site 656024008219 Walker B motif; other site 656024008220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008221 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 656024008222 Peptidase family M41; Region: Peptidase_M41; pfam01434 656024008223 Winged helix-turn helix; Region: HTH_29; pfam13551 656024008224 Integrase core domain; Region: rve; cl01316 656024008225 PAS fold; Region: PAS; pfam00989 656024008226 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 656024008227 putative active site [active] 656024008228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 656024008229 metal binding site [ion binding]; metal-binding site 656024008230 active site 656024008231 I-site; other site 656024008232 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 656024008233 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 656024008234 active site 656024008235 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 656024008236 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 656024008237 FeS/SAM binding site; other site 656024008238 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 656024008239 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 656024008240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 656024008241 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 656024008242 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 656024008243 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 656024008244 putative CoA-transferase; Provisional; Region: PRK11430 656024008245 CoA-transferase family III; Region: CoA_transf_3; pfam02515 656024008246 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 656024008247 proline aminopeptidase P II; Provisional; Region: PRK10879 656024008248 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 656024008249 active site 656024008250 Lsr2; Region: Lsr2; pfam11774 656024008251 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 656024008252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008253 Walker A/P-loop; other site 656024008254 ATP binding site [chemical binding]; other site 656024008255 Q-loop/lid; other site 656024008256 ABC transporter signature motif; other site 656024008257 Walker B; other site 656024008258 D-loop; other site 656024008259 H-loop/switch region; other site 656024008260 PAS fold; Region: PAS_4; pfam08448 656024008261 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 656024008262 PAS fold; Region: PAS_3; pfam08447 656024008263 putative active site [active] 656024008264 heme pocket [chemical binding]; other site 656024008265 GAF domain; Region: GAF_2; pfam13185 656024008266 GAF domain; Region: GAF; cl15785 656024008267 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 656024008268 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 656024008269 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 656024008270 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 656024008271 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 656024008272 AMP-binding enzyme; Region: AMP-binding; cl15778 656024008273 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 656024008274 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 656024008275 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024008276 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 656024008277 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 656024008278 DNA binding residues [nucleotide binding] 656024008279 alpha-glucosidase; Provisional; Region: PRK10137 656024008280 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 656024008281 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 656024008282 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 656024008283 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 656024008284 active site 656024008285 dimer interface [polypeptide binding]; other site 656024008286 effector binding site; other site 656024008287 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 656024008288 TSCPD domain; Region: TSCPD; cl14834 656024008289 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 656024008290 ATP cone domain; Region: ATP-cone; pfam03477 656024008291 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 656024008292 putative peptidoglycan binding site; other site 656024008293 Helix-turn-helix domains; Region: HTH; cl00088 656024008294 LexA repressor; Validated; Region: PRK00215 656024008295 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 656024008296 Catalytic site [active] 656024008297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008298 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 656024008299 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 656024008300 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 656024008301 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 656024008302 HflX GTPase family; Region: HflX; cd01878 656024008303 G1 box; other site 656024008304 GTP/Mg2+ binding site [chemical binding]; other site 656024008305 Switch I region; other site 656024008306 G2 box; other site 656024008307 G3 box; other site 656024008308 Switch II region; other site 656024008309 G4 box; other site 656024008310 G5 box; other site 656024008311 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 656024008312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024008313 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 656024008314 active site 656024008315 metal binding site [ion binding]; metal-binding site 656024008316 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 656024008317 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 656024008318 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 656024008319 FeS/SAM binding site; other site 656024008320 phosphodiesterase; Provisional; Region: PRK12704 656024008321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024008322 RecX family; Region: RecX; cl00936 656024008323 recombinase A; Provisional; Region: recA; PRK09354 656024008324 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 656024008325 hexamer interface [polypeptide binding]; other site 656024008326 Walker A motif; other site 656024008327 ATP binding site [chemical binding]; other site 656024008328 Walker B motif; other site 656024008329 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 656024008330 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 656024008331 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 656024008332 ATP binding site [chemical binding]; other site 656024008333 putative Mg++ binding site [ion binding]; other site 656024008334 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 656024008335 nucleotide binding region [chemical binding]; other site 656024008336 ATP-binding site [chemical binding]; other site 656024008337 DEAD/H associated; Region: DEAD_assoc; pfam08494 656024008338 PspA/IM30 family; Region: PspA_IM30; pfam04012 656024008339 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 656024008340 competence damage-inducible protein A; Provisional; Region: PRK00549 656024008341 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 656024008342 putative MPT binding site; other site 656024008343 Competence-damaged protein; Region: CinA; cl00666 656024008344 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 656024008345 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 656024008346 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 656024008347 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 656024008348 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 656024008349 Winged helix-turn helix; Region: HTH_29; pfam13551 656024008350 Integrase core domain; Region: rve; cl01316 656024008351 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 656024008352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008353 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 656024008354 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 656024008355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024008356 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 656024008357 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 656024008358 dihydrodipicolinate synthase; Region: dapA; TIGR00674 656024008359 dimer interface [polypeptide binding]; other site 656024008360 active site 656024008361 catalytic residue [active] 656024008362 Domain of unknown function (DUF222); Region: DUF222; pfam02720 656024008363 Acetokinase family; Region: Acetate_kinase; cl01029 656024008364 propionate/acetate kinase; Provisional; Region: PRK12379 656024008365 putative phosphoketolase; Provisional; Region: PRK05261 656024008366 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 656024008367 TPP-binding site; other site 656024008368 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 656024008369 XFP C-terminal domain; Region: XFP_C; pfam09363 656024008370 Thymidylate synthase complementing protein; Region: Thy1; cl03630 656024008371 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 656024008372 dihydrodipicolinate reductase; Provisional; Region: PRK00048 656024008373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008374 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 656024008375 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 656024008376 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 656024008377 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 656024008378 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 656024008379 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 656024008380 RNase E interface [polypeptide binding]; other site 656024008381 trimer interface [polypeptide binding]; other site 656024008382 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 656024008383 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 656024008384 RNase E interface [polypeptide binding]; other site 656024008385 trimer interface [polypeptide binding]; other site 656024008386 active site 656024008387 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 656024008388 putative nucleic acid binding region [nucleotide binding]; other site 656024008389 G-X-X-G motif; other site 656024008390 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 656024008391 RNA binding site [nucleotide binding]; other site 656024008392 domain interface; other site 656024008393 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 656024008394 16S/18S rRNA binding site [nucleotide binding]; other site 656024008395 S13e-L30e interaction site [polypeptide binding]; other site 656024008396 25S rRNA binding site [nucleotide binding]; other site 656024008397 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 656024008398 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 656024008399 active site 656024008400 Riboflavin kinase; Region: Flavokinase; cl03312 656024008401 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 656024008402 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 656024008403 RNA binding site [nucleotide binding]; other site 656024008404 active site 656024008405 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 656024008406 DHH family; Region: DHH; pfam01368 656024008407 DHHA1 domain; Region: DHHA1; pfam02272 656024008408 Ribosome-binding factor A; Region: RBFA; cl00542 656024008409 Protein of unknown function (DUF503); Region: DUF503; cl00669 656024008410 translation initiation factor IF-2; Region: IF-2; TIGR00487 656024008411 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 656024008412 G1 box; other site 656024008413 putative GEF interaction site [polypeptide binding]; other site 656024008414 GTP/Mg2+ binding site [chemical binding]; other site 656024008415 Switch I region; other site 656024008416 G2 box; other site 656024008417 G3 box; other site 656024008418 Switch II region; other site 656024008419 G4 box; other site 656024008420 G5 box; other site 656024008421 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 656024008422 Translation-initiation factor 2; Region: IF-2; pfam11987 656024008423 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 656024008424 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 656024008425 putative RNA binding cleft [nucleotide binding]; other site 656024008426 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 656024008427 NusA N-terminal domain; Region: NusA_N; pfam08529 656024008428 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 656024008429 RNA binding site [nucleotide binding]; other site 656024008430 homodimer interface [polypeptide binding]; other site 656024008431 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 656024008432 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 656024008433 G-X-X-G motif; other site 656024008434 ribosome maturation protein RimP; Reviewed; Region: PRK00092 656024008435 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 656024008436 Sm1 motif; other site 656024008437 D3 - B interaction site; other site 656024008438 D1 - D2 interaction site; other site 656024008439 Hfq - Hfq interaction site; other site 656024008440 RNA binding pocket [nucleotide binding]; other site 656024008441 Sm2 motif; other site 656024008442 Predicted transcriptional regulator [Transcription]; Region: COG1959 656024008443 Helix-turn-helix domains; Region: HTH; cl00088 656024008444 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 656024008445 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 656024008446 dimer interface [polypeptide binding]; other site 656024008447 conserved gate region; other site 656024008448 putative PBP binding loops; other site 656024008449 ABC-ATPase subunit interface; other site 656024008450 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 656024008451 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 656024008452 Walker A/P-loop; other site 656024008453 ATP binding site [chemical binding]; other site 656024008454 Q-loop/lid; other site 656024008455 ABC transporter signature motif; other site 656024008456 Walker B; other site 656024008457 D-loop; other site 656024008458 H-loop/switch region; other site 656024008459 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 656024008460 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; cl15306 656024008461 substrate binding pocket [chemical binding]; other site 656024008462 membrane-bound complex binding site; other site 656024008463 Predicted acetyltransferase [General function prediction only]; Region: COG3393 656024008464 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 656024008465 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024008466 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 656024008467 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 656024008468 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 656024008469 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 656024008470 active site 656024008471 zinc metallopeptidase RseP; Provisional; Region: PRK10779 656024008472 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 656024008473 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 656024008474 putative substrate binding region [chemical binding]; other site 656024008475 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 656024008476 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 656024008477 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 656024008478 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 656024008479 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 656024008480 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 656024008481 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 656024008482 FeS/SAM binding site; other site 656024008483 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 656024008484 ribosome recycling factor; Reviewed; Region: frr; PRK00083 656024008485 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 656024008486 hinge region; other site 656024008487 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 656024008488 putative nucleotide binding site [chemical binding]; other site 656024008489 uridine monophosphate binding site [chemical binding]; other site 656024008490 homohexameric interface [polypeptide binding]; other site 656024008491 elongation factor Ts; Reviewed; Region: tsf; PRK12332 656024008492 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 656024008493 Elongation factor TS; Region: EF_TS; pfam00889 656024008494 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 656024008495 rRNA interaction site [nucleotide binding]; other site 656024008496 S8 interaction site; other site 656024008497 putative laminin-1 binding site; other site 656024008498 Peptidase family M23; Region: Peptidase_M23; pfam01551 656024008499 Winged helix-turn helix; Region: HTH_29; pfam13551 656024008500 Integrase core domain; Region: rve; cl01316 656024008501 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 656024008502 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 656024008503 DNA binding site [nucleotide binding] 656024008504 Int/Topo IB signature motif; other site 656024008505 active site 656024008506 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 656024008507 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 656024008508 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 656024008509 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 656024008510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008511 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 656024008512 Restriction endonuclease; Region: Mrr_cat; cl00516 656024008513 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 656024008514 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 656024008515 RNA/DNA hybrid binding site [nucleotide binding]; other site 656024008516 active site 656024008517 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 656024008518 Catalytic site [active] 656024008519 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 656024008520 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 656024008521 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 656024008522 RimM N-terminal domain; Region: RimM; pfam01782 656024008523 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 656024008524 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 656024008525 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 656024008526 signal recognition particle protein; Provisional; Region: PRK10867 656024008527 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 656024008528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008529 Signal peptide binding domain; Region: SRP_SPB; pfam02978 656024008530 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 656024008531 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 656024008532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008533 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 656024008534 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 656024008535 Walker A/P-loop; other site 656024008536 ATP binding site [chemical binding]; other site 656024008537 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 656024008538 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 656024008539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008540 ABC transporter signature motif; other site 656024008541 Walker B; other site 656024008542 D-loop; other site 656024008543 H-loop/switch region; other site 656024008544 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 656024008545 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 656024008546 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 656024008547 DNA binding site [nucleotide binding] 656024008548 catalytic residue [active] 656024008549 H2TH interface [polypeptide binding]; other site 656024008550 putative catalytic residues [active] 656024008551 turnover-facilitating residue; other site 656024008552 intercalation triad [nucleotide binding]; other site 656024008553 8OG recognition residue [nucleotide binding]; other site 656024008554 putative reading head residues; other site 656024008555 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 656024008556 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 656024008557 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 656024008558 dimerization interface [polypeptide binding]; other site 656024008559 active site 656024008560 metal binding site [ion binding]; metal-binding site 656024008561 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 656024008562 dsRNA binding site [nucleotide binding]; other site 656024008563 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 656024008564 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 656024008565 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 656024008566 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024008567 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 656024008568 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 656024008569 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 656024008570 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 656024008571 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 656024008572 active site 656024008573 (T/H)XGH motif; other site 656024008574 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; cl15754 656024008575 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 656024008576 generic binding surface II; other site 656024008577 ssDNA binding site; other site 656024008578 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 656024008579 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 656024008580 ATP binding site [chemical binding]; other site 656024008581 putative Mg++ binding site [ion binding]; other site 656024008582 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 656024008583 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 656024008584 nucleotide binding region [chemical binding]; other site 656024008585 ATP-binding site [chemical binding]; other site 656024008586 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 656024008587 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 656024008588 dimer interface [polypeptide binding]; other site 656024008589 substrate binding site [chemical binding]; other site 656024008590 ATP binding site [chemical binding]; other site 656024008591 thiamine monophosphate kinase; Provisional; Region: PRK05731 656024008592 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 656024008593 dimerization interface [polypeptide binding]; other site 656024008594 ATP binding site [chemical binding]; other site 656024008595 Helix-turn-helix domains; Region: HTH; cl00088 656024008596 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 656024008597 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 656024008598 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 656024008599 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024008600 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 656024008601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008602 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 656024008603 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 656024008604 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 656024008605 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 656024008606 polyphosphate kinase; Provisional; Region: PRK05443 656024008607 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 656024008608 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 656024008609 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 656024008610 putative domain interface [polypeptide binding]; other site 656024008611 putative active site [active] 656024008612 catalytic site [active] 656024008613 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 656024008614 putative active site [active] 656024008615 catalytic site [active] 656024008616 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 656024008617 IHF dimer interface [polypeptide binding]; other site 656024008618 IHF - DNA interface [nucleotide binding]; other site 656024008619 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 656024008620 substrate binding site [chemical binding]; other site 656024008621 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 656024008622 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 656024008623 substrate binding site [chemical binding]; other site 656024008624 ligand binding site [chemical binding]; other site 656024008625 Transcriptional regulator [Transcription]; Region: IclR; COG1414 656024008626 Helix-turn-helix domains; Region: HTH; cl00088 656024008627 Bacterial transcriptional regulator; Region: IclR; pfam01614 656024008628 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 656024008629 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 656024008630 ligand binding site [chemical binding]; other site 656024008631 flexible hinge region; other site 656024008632 Helix-turn-helix domains; Region: HTH; cl00088 656024008633 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024008634 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024008635 active site 656024008636 ATP binding site [chemical binding]; other site 656024008637 substrate binding site [chemical binding]; other site 656024008638 activation loop (A-loop); other site 656024008639 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024008640 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024008641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 656024008642 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 656024008643 dimer interface [polypeptide binding]; other site 656024008644 phosphorylation site [posttranslational modification] 656024008645 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 656024008646 ATP binding site [chemical binding]; other site 656024008647 Mg2+ binding site [ion binding]; other site 656024008648 G-X-G motif; other site 656024008649 Winged helix-turn helix; Region: HTH_29; pfam13551 656024008650 Integrase core domain; Region: rve; cl01316 656024008651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024008652 DNA-binding site [nucleotide binding]; DNA binding site 656024008653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024008654 DNA-binding site [nucleotide binding]; DNA binding site 656024008655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024008656 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_17; cd04676 656024008657 nudix motif; other site 656024008658 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 656024008659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008660 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 656024008661 dimer interface [polypeptide binding]; other site 656024008662 ssDNA binding site [nucleotide binding]; other site 656024008663 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024008664 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; cl02940 656024008665 beta-clamp/clamp loader binding surface; other site 656024008666 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 656024008667 nucleotide binding site [chemical binding]; other site 656024008668 polymerase nucleotide-binding site; other site 656024008669 primase nucleotide-binding site [nucleotide binding]; other site 656024008670 DNA-binding residues [nucleotide binding]; DNA binding site 656024008671 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 656024008672 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 656024008673 active site 656024008674 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 656024008675 active site 656024008676 DNA binding site [nucleotide binding] 656024008677 catalytic site [active] 656024008678 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 656024008679 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024008680 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 656024008681 DNA binding site [nucleotide binding] 656024008682 Int/Topo IB signature motif; other site 656024008683 active site 656024008684 catalytic residues [active] 656024008685 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 656024008686 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 656024008687 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 656024008688 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 656024008689 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 656024008690 Phosphotransferase enzyme family; Region: APH; pfam01636 656024008691 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 656024008692 S-adenosylmethionine binding site [chemical binding]; other site 656024008693 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 656024008694 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 656024008695 active site 656024008696 catalytic residues [active] 656024008697 metal binding site [ion binding]; metal-binding site 656024008698 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 656024008699 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 656024008700 Peptidase family M48; Region: Peptidase_M48; cl12018 656024008701 Helix-turn-helix domains; Region: HTH; cl00088 656024008702 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008703 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 656024008704 Walker A/P-loop; other site 656024008705 ATP binding site [chemical binding]; other site 656024008706 Q-loop/lid; other site 656024008707 ABC transporter signature motif; other site 656024008708 Walker B; other site 656024008709 D-loop; other site 656024008710 H-loop/switch region; other site 656024008711 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024008712 Bacitracin resistance protein BacA; Region: BacA; cl00858 656024008713 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 656024008714 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 656024008715 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 656024008716 ligand binding site [chemical binding]; other site 656024008717 flexible hinge region; other site 656024008718 Helix-turn-helix domains; Region: HTH; cl00088 656024008719 FOG: CBS domain [General function prediction only]; Region: COG0517 656024008720 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_11; cd04624 656024008721 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 656024008722 homodimer interface [polypeptide binding]; other site 656024008723 substrate-cofactor binding pocket; other site 656024008724 catalytic residue [active] 656024008725 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 656024008726 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 656024008727 2-isopropylmalate synthase; Validated; Region: PRK03739 656024008728 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 656024008729 active site 656024008730 catalytic residues [active] 656024008731 metal binding site [ion binding]; metal-binding site 656024008732 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 656024008733 Septum formation; Region: Septum_form; pfam13845 656024008734 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 656024008735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008736 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 656024008737 putative L-serine binding site [chemical binding]; other site 656024008738 ketol-acid reductoisomerase; Provisional; Region: PRK05479 656024008739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008740 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 656024008741 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 656024008742 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 656024008743 putative valine binding site [chemical binding]; other site 656024008744 dimer interface [polypeptide binding]; other site 656024008745 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 656024008746 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 656024008747 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 656024008748 PYR/PP interface [polypeptide binding]; other site 656024008749 dimer interface [polypeptide binding]; other site 656024008750 TPP binding site [chemical binding]; other site 656024008751 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 656024008752 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 656024008753 TPP-binding site [chemical binding]; other site 656024008754 dimer interface [polypeptide binding]; other site 656024008755 Transposase, Mutator family; Region: Transposase_mut; pfam00872 656024008756 MULE transposase domain; Region: MULE; pfam10551 656024008757 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024008758 oligomeric interface; other site 656024008759 putative active site [active] 656024008760 homodimer interface [polypeptide binding]; other site 656024008761 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 656024008762 penicillin-binding protein 2; Provisional; Region: PRK10795 656024008763 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024008764 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 656024008765 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 656024008766 GatB domain; Region: GatB_Yqey; cl11497 656024008767 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 656024008768 Amidase; Region: Amidase; cl11426 656024008769 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 656024008770 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 656024008771 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 656024008772 active site 656024008773 HIGH motif; other site 656024008774 nucleotide binding site [chemical binding]; other site 656024008775 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 656024008776 active site 656024008777 KMSKS motif; other site 656024008778 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 656024008779 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 656024008780 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 656024008781 nucleotide binding pocket [chemical binding]; other site 656024008782 K-X-D-G motif; other site 656024008783 catalytic site [active] 656024008784 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 656024008785 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 656024008786 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 656024008787 Dimer interface [polypeptide binding]; other site 656024008788 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 656024008789 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 656024008790 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 656024008791 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 656024008792 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 656024008793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024008794 catalytic residue [active] 656024008795 Archaeal ATPase; Region: Arch_ATPase; pfam01637 656024008796 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 656024008797 nudix motif; other site 656024008798 UTRA domain; Region: UTRA; cl01230 656024008799 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 656024008800 Helix-turn-helix domains; Region: HTH; cl00088 656024008801 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 656024008802 B12 binding site [chemical binding]; other site 656024008803 cobalt ligand [ion binding]; other site 656024008804 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 656024008805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008806 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 656024008807 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 656024008808 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 656024008809 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 656024008810 Ligand Binding Site [chemical binding]; other site 656024008811 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 656024008812 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 656024008813 Ligand binding site [chemical binding]; other site 656024008814 Electron transfer flavoprotein domain; Region: ETF; pfam01012 656024008815 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 656024008816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008817 Uncharacterized conserved protein [Function unknown]; Region: COG1543 656024008818 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 656024008819 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 656024008820 putative catalytic site [active] 656024008821 putative metal binding site [ion binding]; other site 656024008822 putative phosphate binding site [ion binding]; other site 656024008823 Peptidase family M48; Region: Peptidase_M48; cl12018 656024008824 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 656024008825 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 656024008826 trimer interface [polypeptide binding]; other site 656024008827 active site 656024008828 substrate binding site [chemical binding]; other site 656024008829 CoA binding site [chemical binding]; other site 656024008830 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 656024008831 S-adenosylmethionine binding site [chemical binding]; other site 656024008832 enoyl-CoA hydratase; Provisional; Region: PRK05862 656024008833 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 656024008834 substrate binding site [chemical binding]; other site 656024008835 oxyanion hole (OAH) forming residues; other site 656024008836 trimer interface [polypeptide binding]; other site 656024008837 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 656024008838 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 656024008839 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 656024008840 active site 656024008841 catalytic site [active] 656024008842 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 656024008843 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024008844 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 656024008845 putative homodimer interface [polypeptide binding]; other site 656024008846 putative active site pocket [active] 656024008847 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 656024008848 acetyl-CoA synthetase; Provisional; Region: PRK00174 656024008849 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 656024008850 AMP-binding enzyme; Region: AMP-binding; cl15778 656024008851 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024008852 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 656024008853 putative substrate translocation pore; other site 656024008854 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 656024008855 Helix-turn-helix domains; Region: HTH; cl00088 656024008856 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 656024008857 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 656024008858 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 656024008859 Double zinc ribbon; Region: DZR; pfam12773 656024008860 Hsp70 protein; Region: HSP70; pfam00012 656024008861 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; cl03075 656024008862 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 656024008863 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024008864 putative metal binding site [ion binding]; other site 656024008865 Integral membrane protein TerC family; Region: TerC; cl10468 656024008866 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024008867 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024008868 putative metal binding site [ion binding]; other site 656024008869 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 656024008870 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 656024008871 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 656024008872 active site 656024008873 homodimer interface [polypeptide binding]; other site 656024008874 catalytic site [active] 656024008875 acceptor binding site [chemical binding]; other site 656024008876 trehalose synthase; Region: treS_nterm; TIGR02456 656024008877 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 656024008878 active site 656024008879 catalytic site [active] 656024008880 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 656024008881 glycogen branching enzyme; Provisional; Region: PRK05402 656024008882 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 656024008883 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 656024008884 active site 656024008885 catalytic site [active] 656024008886 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 656024008887 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 656024008888 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 656024008889 Domain of unknown function DUF77; Region: DUF77; cl00307 656024008890 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 656024008891 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 656024008892 dimer interface [polypeptide binding]; other site 656024008893 phosphorylation site [posttranslational modification] 656024008894 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 656024008895 ATP binding site [chemical binding]; other site 656024008896 Mg2+ binding site [ion binding]; other site 656024008897 G-X-G motif; other site 656024008898 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 656024008899 Response regulator receiver domain; Region: Response_reg; pfam00072 656024008900 active site 656024008901 phosphorylation site [posttranslational modification] 656024008902 intermolecular recognition site; other site 656024008903 dimerization interface [polypeptide binding]; other site 656024008904 ArgK protein; Region: ArgK; pfam03308 656024008905 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 656024008906 Walker A; other site 656024008907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008908 Switch II region; other site 656024008909 G4 box; other site 656024008910 G5 box; other site 656024008911 putative acyltransferase; Provisional; Region: PRK05790 656024008912 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 656024008913 dimer interface [polypeptide binding]; other site 656024008914 active site 656024008915 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 656024008916 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 656024008917 dimer interface [polypeptide binding]; other site 656024008918 substrate binding site [chemical binding]; other site 656024008919 metal binding site [ion binding]; metal-binding site 656024008920 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 656024008921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024008922 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 656024008923 DNA binding residues [nucleotide binding] 656024008924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008925 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 656024008926 NAD(P) binding site [chemical binding]; other site 656024008927 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 656024008928 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 656024008929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008930 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 656024008931 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 656024008932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024008933 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 656024008934 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024008935 putative active site [active] 656024008936 Protein of unknown function DUF91; Region: DUF91; cl00709 656024008937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024008938 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 656024008939 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 656024008940 B12 binding site [chemical binding]; other site 656024008941 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 656024008942 anti sigma factor interaction site; other site 656024008943 regulatory phosphorylation site [posttranslational modification]; other site 656024008944 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 656024008945 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 656024008946 hinge; other site 656024008947 active site 656024008948 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 656024008949 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 656024008950 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 656024008951 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 656024008952 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 656024008953 alpha subunit interaction interface [polypeptide binding]; other site 656024008954 Walker A motif; other site 656024008955 ATP binding site [chemical binding]; other site 656024008956 Walker B motif; other site 656024008957 inhibitor binding site; inhibition site 656024008958 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 656024008959 ATP synthase; Region: ATP-synt; cl00365 656024008960 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 656024008961 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 656024008962 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 656024008963 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 656024008964 beta subunit interaction interface [polypeptide binding]; other site 656024008965 Walker A motif; other site 656024008966 ATP binding site [chemical binding]; other site 656024008967 Walker B motif; other site 656024008968 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 656024008969 Plant ATP synthase F0; Region: YMF19; cl07975 656024008970 Plant ATP synthase F0; Region: YMF19; cl07975 656024008971 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 656024008972 ATP synthase subunit C; Region: ATP-synt_C; cl00466 656024008973 ATP synthase A chain; Region: ATP-synt_A; cl00413 656024008974 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 656024008975 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 656024008976 Mg++ binding site [ion binding]; other site 656024008977 putative catalytic motif [active] 656024008978 substrate binding site [chemical binding]; other site 656024008979 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 656024008980 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 656024008981 dimer interface [polypeptide binding]; other site 656024008982 glycine-pyridoxal phosphate binding site [chemical binding]; other site 656024008983 active site 656024008984 folate binding site [chemical binding]; other site 656024008985 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 656024008986 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 656024008987 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 656024008988 S-adenosylmethionine binding site [chemical binding]; other site 656024008989 peptide chain release factor 1; Validated; Region: prfA; PRK00591 656024008990 RF-1 domain; Region: RF-1; cl02875 656024008991 RF-1 domain; Region: RF-1; cl02875 656024008992 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 656024008993 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 656024008994 transcription termination factor Rho; Provisional; Region: PRK12608 656024008995 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 656024008996 RNA binding site [nucleotide binding]; other site 656024008997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024008998 Walker A motif; other site 656024008999 ATP binding site [chemical binding]; other site 656024009000 Walker B motif; other site 656024009001 homoserine kinase; Provisional; Region: PRK01212 656024009002 threonine synthase; Reviewed; Region: PRK06721 656024009003 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 656024009004 homodimer interface [polypeptide binding]; other site 656024009005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024009006 catalytic residue [active] 656024009007 homoserine dehydrogenase; Provisional; Region: PRK06349 656024009008 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 656024009009 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 656024009010 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 656024009011 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 656024009012 tRNA binding surface [nucleotide binding]; other site 656024009013 anticodon binding site; other site 656024009014 Response regulator receiver domain; Region: Response_reg; pfam00072 656024009015 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 656024009016 active site 656024009017 phosphorylation site [posttranslational modification] 656024009018 intermolecular recognition site; other site 656024009019 dimerization interface [polypeptide binding]; other site 656024009020 Predicted transcriptional regulators [Transcription]; Region: COG1510 656024009021 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 656024009022 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 656024009023 Walker A/P-loop; other site 656024009024 ATP binding site [chemical binding]; other site 656024009025 Q-loop/lid; other site 656024009026 ABC transporter signature motif; other site 656024009027 Walker B; other site 656024009028 D-loop; other site 656024009029 H-loop/switch region; other site 656024009030 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024009031 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 656024009032 EamA-like transporter family; Region: EamA; cl01037 656024009033 EamA-like transporter family; Region: EamA; cl01037 656024009034 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 656024009035 Radical SAM superfamily; Region: Radical_SAM; pfam04055 656024009036 FeS/SAM binding site; other site 656024009037 Arginase family; Region: Arginase; cl00306 656024009038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024009039 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 656024009040 active site 656024009041 catalytic residues [active] 656024009042 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 656024009043 Helix-turn-helix domains; Region: HTH; cl00088 656024009044 Winged helix-turn helix; Region: HTH_29; pfam13551 656024009045 Helix-turn-helix domains; Region: HTH; cl00088 656024009046 Integrase core domain; Region: rve; cl01316 656024009047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024009048 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 656024009049 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 656024009050 putative metal binding site [ion binding]; other site 656024009051 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 656024009052 S-adenosylmethionine binding site [chemical binding]; other site 656024009053 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 656024009054 PHP-associated; Region: PHP_C; pfam13263 656024009055 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 656024009056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009057 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 656024009058 potential frameshift: common BLAST hit: gi|312194713|ref|YP_004014774.1| DNA helicase 656024009059 DEAD-like helicases superfamily; Region: DEXDc2; smart00488 656024009060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009061 Family description; Region: UvrD_C_2; cl15862 656024009062 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 656024009063 putative active site [active] 656024009064 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 656024009065 dimer interface [polypeptide binding]; other site 656024009066 putative anticodon binding site; other site 656024009067 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 656024009068 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 656024009069 motif 1; other site 656024009070 active site 656024009071 motif 2; other site 656024009072 motif 3; other site 656024009073 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 656024009074 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024009075 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 656024009076 malate dehydrogenase; Reviewed; Region: PRK06223 656024009077 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 656024009078 NAD(P) binding site [chemical binding]; other site 656024009079 dimer interface [polypeptide binding]; other site 656024009080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024009081 substrate binding site [chemical binding]; other site 656024009082 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 656024009083 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 656024009084 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 656024009085 purine monophosphate binding site [chemical binding]; other site 656024009086 dimer interface [polypeptide binding]; other site 656024009087 putative catalytic residues [active] 656024009088 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 656024009089 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 656024009090 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 656024009091 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 656024009092 active site 656024009093 substrate binding site [chemical binding]; other site 656024009094 cosubstrate binding site; other site 656024009095 catalytic site [active] 656024009096 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 656024009097 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 656024009098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009099 CoA-ligase; Region: Ligase_CoA; cl02894 656024009100 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 656024009101 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024009102 CoA-ligase; Region: Ligase_CoA; cl02894 656024009103 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 656024009104 B12 binding site [chemical binding]; other site 656024009105 cobalt ligand [ion binding]; other site 656024009106 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 656024009107 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 656024009108 nucleophilic elbow; other site 656024009109 catalytic triad; other site 656024009110 Peptidase family M23; Region: Peptidase_M23; pfam01551 656024009111 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 656024009112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009113 Family description; Region: UvrD_C_2; cl15862 656024009114 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 656024009115 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 656024009116 tetramer interface [polypeptide binding]; other site 656024009117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024009118 catalytic residue [active] 656024009119 GMP synthase; Reviewed; Region: guaA; PRK00074 656024009120 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 656024009121 AMP/PPi binding site [chemical binding]; other site 656024009122 candidate oxyanion hole; other site 656024009123 catalytic triad [active] 656024009124 potential glutamine specificity residues [chemical binding]; other site 656024009125 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 656024009126 ATP Binding subdomain [chemical binding]; other site 656024009127 Ligand Binding sites [chemical binding]; other site 656024009128 Dimerization subdomain; other site 656024009129 Nitrate and nitrite sensing; Region: NIT; pfam08376 656024009130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 656024009131 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 656024009132 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 656024009133 ATP binding site [chemical binding]; other site 656024009134 Mg2+ binding site [ion binding]; other site 656024009135 G-X-G motif; other site 656024009136 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 656024009137 Protein of unknown function (DUF742); Region: DUF742; pfam05331 656024009138 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 656024009139 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 656024009140 G1 box; other site 656024009141 GTP/Mg2+ binding site [chemical binding]; other site 656024009142 G2 box; other site 656024009143 Switch I region; other site 656024009144 G3 box; other site 656024009145 Switch II region; other site 656024009146 G4 box; other site 656024009147 G5 box; other site 656024009148 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 656024009149 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 656024009150 putative ligand binding site [chemical binding]; other site 656024009151 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 656024009152 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 656024009153 active site 656024009154 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 656024009155 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 656024009156 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 656024009157 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 656024009158 active site 656024009159 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 656024009160 DNA binding residues [nucleotide binding] 656024009161 B12 binding domain; Region: B12-binding_2; cl03653 656024009162 Transcription factor WhiB; Region: Whib; pfam02467 656024009163 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 656024009164 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 656024009165 ring oligomerisation interface [polypeptide binding]; other site 656024009166 ATP/Mg binding site [chemical binding]; other site 656024009167 stacking interactions; other site 656024009168 hinge regions; other site 656024009169 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 656024009170 oligomerisation interface [polypeptide binding]; other site 656024009171 mobile loop; other site 656024009172 roof hairpin; other site 656024009173 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024009174 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 656024009175 NAD binding site [chemical binding]; other site 656024009176 putative substrate binding site 2 [chemical binding]; other site 656024009177 putative substrate binding site 1 [chemical binding]; other site 656024009178 active site 656024009179 putative glycoprotease GCP; Region: bact_gcp; TIGR03723 656024009180 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 656024009181 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024009182 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 656024009183 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 656024009184 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 656024009185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024009186 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 656024009187 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 656024009188 alanine racemase; Reviewed; Region: alr; PRK00053 656024009189 active site 656024009190 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 656024009191 dimer interface [polypeptide binding]; other site 656024009192 substrate binding site [chemical binding]; other site 656024009193 catalytic residues [active] 656024009194 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 656024009195 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 656024009196 putative substrate binding site [chemical binding]; other site 656024009197 putative ATP binding site [chemical binding]; other site 656024009198 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 656024009199 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 656024009200 glutaminase active site [active] 656024009201 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 656024009202 dimer interface [polypeptide binding]; other site 656024009203 active site 656024009204 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 656024009205 dimer interface [polypeptide binding]; other site 656024009206 active site 656024009207 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 656024009208 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 656024009209 active site 656024009210 substrate binding site [chemical binding]; other site 656024009211 metal binding site [ion binding]; metal-binding site 656024009212 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 656024009213 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 656024009214 23S rRNA interface [nucleotide binding]; other site 656024009215 L3 interface [polypeptide binding]; other site 656024009216 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 656024009217 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 656024009218 dimerization interface 3.5A [polypeptide binding]; other site 656024009219 active site 656024009220 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 656024009221 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 656024009222 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 656024009223 alphaNTD homodimer interface [polypeptide binding]; other site 656024009224 alphaNTD - beta interaction site [polypeptide binding]; other site 656024009225 alphaNTD - beta' interaction site [polypeptide binding]; other site 656024009226 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 656024009227 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 656024009228 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 656024009229 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 656024009230 RNA binding surface [nucleotide binding]; other site 656024009231 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 656024009232 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 656024009233 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 656024009234 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 656024009235 rRNA binding site [nucleotide binding]; other site 656024009236 predicted 30S ribosome binding site; other site 656024009237 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 656024009238 active site 656024009239 adenylate kinase; Reviewed; Region: adk; PRK00279 656024009240 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 656024009241 AMP-binding site [chemical binding]; other site 656024009242 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 656024009243 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 656024009244 SecY translocase; Region: SecY; pfam00344 656024009245 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 656024009246 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 656024009247 23S rRNA binding site [nucleotide binding]; other site 656024009248 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 656024009249 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 656024009250 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 656024009251 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 656024009252 23S rRNA interface [nucleotide binding]; other site 656024009253 L21e interface [polypeptide binding]; other site 656024009254 5S rRNA interface [nucleotide binding]; other site 656024009255 L27 interface [polypeptide binding]; other site 656024009256 L5 interface [polypeptide binding]; other site 656024009257 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 656024009258 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 656024009259 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 656024009260 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 656024009261 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 656024009262 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 656024009263 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 656024009264 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 656024009265 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 656024009266 KOW motif; Region: KOW; cl00354 656024009267 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 656024009268 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 656024009269 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 656024009270 putative translocon interaction site; other site 656024009271 23S rRNA interface [nucleotide binding]; other site 656024009272 signal recognition particle (SRP54) interaction site; other site 656024009273 L23 interface [polypeptide binding]; other site 656024009274 trigger factor interaction site; other site 656024009275 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 656024009276 23S rRNA interface [nucleotide binding]; other site 656024009277 5S rRNA interface [nucleotide binding]; other site 656024009278 putative antibiotic binding site [chemical binding]; other site 656024009279 L25 interface [polypeptide binding]; other site 656024009280 L27 interface [polypeptide binding]; other site 656024009281 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 656024009282 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 656024009283 G-X-X-G motif; other site 656024009284 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 656024009285 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 656024009286 protein-rRNA interface [nucleotide binding]; other site 656024009287 putative translocon binding site; other site 656024009288 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 656024009289 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 656024009290 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 656024009291 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 656024009292 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 656024009293 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 656024009294 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 656024009295 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 656024009296 elongation factor Tu; Reviewed; Region: PRK00049 656024009297 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 656024009298 G1 box; other site 656024009299 GEF interaction site [polypeptide binding]; other site 656024009300 GTP/Mg2+ binding site [chemical binding]; other site 656024009301 Switch I region; other site 656024009302 G2 box; other site 656024009303 G3 box; other site 656024009304 Switch II region; other site 656024009305 G4 box; other site 656024009306 G5 box; other site 656024009307 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 656024009308 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 656024009309 Antibiotic Binding Site [chemical binding]; other site 656024009310 elongation factor G; Reviewed; Region: PRK00007 656024009311 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 656024009312 G1 box; other site 656024009313 putative GEF interaction site [polypeptide binding]; other site 656024009314 GTP/Mg2+ binding site [chemical binding]; other site 656024009315 Switch I region; other site 656024009316 G2 box; other site 656024009317 G3 box; other site 656024009318 Switch II region; other site 656024009319 G4 box; other site 656024009320 G5 box; other site 656024009321 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 656024009322 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 656024009323 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 656024009324 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 656024009325 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 656024009326 S17 interaction site [polypeptide binding]; other site 656024009327 S8 interaction site; other site 656024009328 16S rRNA interaction site [nucleotide binding]; other site 656024009329 streptomycin interaction site [chemical binding]; other site 656024009330 23S rRNA interaction site [nucleotide binding]; other site 656024009331 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 656024009332 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 656024009333 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; cl15754 656024009334 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 656024009335 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 656024009336 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009337 Walker A/P-loop; other site 656024009338 ATP binding site [chemical binding]; other site 656024009339 Q-loop/lid; other site 656024009340 ABC transporter signature motif; other site 656024009341 Walker B; other site 656024009342 D-loop; other site 656024009343 H-loop/switch region; other site 656024009344 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 656024009345 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 656024009346 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 656024009347 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 656024009348 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 656024009349 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 656024009350 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 656024009351 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 656024009352 G-loop; other site 656024009353 DNA binding site [nucleotide binding] 656024009354 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 656024009355 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 656024009356 RPB12 interaction site [polypeptide binding]; other site 656024009357 RPB1 interaction site [polypeptide binding]; other site 656024009358 RPB10 interaction site [polypeptide binding]; other site 656024009359 RPB11 interaction site [polypeptide binding]; other site 656024009360 RPB3 interaction site [polypeptide binding]; other site 656024009361 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 656024009362 core dimer interface [polypeptide binding]; other site 656024009363 peripheral dimer interface [polypeptide binding]; other site 656024009364 L10 interface [polypeptide binding]; other site 656024009365 L11 interface [polypeptide binding]; other site 656024009366 putative EF-Tu interaction site [polypeptide binding]; other site 656024009367 putative EF-G interaction site [polypeptide binding]; other site 656024009368 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 656024009369 23S rRNA interface [nucleotide binding]; other site 656024009370 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 656024009371 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 656024009372 mRNA/rRNA interface [nucleotide binding]; other site 656024009373 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 656024009374 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 656024009375 putative thiostrepton binding site; other site 656024009376 23S rRNA interface [nucleotide binding]; other site 656024009377 L7/L12 interface [polypeptide binding]; other site 656024009378 L25 interface [polypeptide binding]; other site 656024009379 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 656024009380 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 656024009381 putative homodimer interface [polypeptide binding]; other site 656024009382 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 656024009383 aspartate aminotransferase; Provisional; Region: PRK05764 656024009384 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 656024009385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024009386 homodimer interface [polypeptide binding]; other site 656024009387 catalytic residue [active] 656024009388 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 656024009389 active site 2 [active] 656024009390 active site 1 [active] 656024009391 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 656024009392 active site 656024009393 catalytic site [active] 656024009394 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 656024009395 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 656024009396 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 656024009397 active site 656024009398 LGFP repeat; Region: LGFP; pfam08310 656024009399 LGFP repeat; Region: LGFP; pfam08310 656024009400 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 656024009401 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 656024009402 putative active site pocket [active] 656024009403 dimerization interface [polypeptide binding]; other site 656024009404 putative catalytic residue [active] 656024009405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 656024009406 active site 656024009407 Protein of unknown function (DUF520); Region: DUF520; cl00723 656024009408 Peptidase family M48; Region: Peptidase_M48; cl12018 656024009409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009410 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 656024009411 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 656024009412 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 656024009413 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 656024009414 dimer interface [polypeptide binding]; other site 656024009415 PYR/PP interface [polypeptide binding]; other site 656024009416 TPP binding site [chemical binding]; other site 656024009417 substrate binding site [chemical binding]; other site 656024009418 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 656024009419 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 656024009420 TPP-binding site [chemical binding]; other site 656024009421 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 656024009422 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 656024009423 substrate binding pocket [chemical binding]; other site 656024009424 chain length determination region; other site 656024009425 substrate-Mg2+ binding site; other site 656024009426 catalytic residues [active] 656024009427 aspartate-rich region 1; other site 656024009428 active site lid residues [active] 656024009429 aspartate-rich region 2; other site 656024009430 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 656024009431 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 656024009432 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 656024009433 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 656024009434 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 656024009435 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 656024009436 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 656024009437 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 656024009438 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 656024009439 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 656024009440 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 656024009441 4Fe-4S binding domain; Region: Fer4; cl02805 656024009442 4Fe-4S binding domain; Region: Fer4; cl02805 656024009443 NADH dehydrogenase; Region: NADHdh; cl00469 656024009444 NADH dehydrogenase subunit G; Validated; Region: PRK07860 656024009445 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 656024009446 catalytic loop [active] 656024009447 iron binding site [ion binding]; other site 656024009448 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 656024009449 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 656024009450 molybdopterin cofactor binding site; other site 656024009451 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 656024009452 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 656024009453 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 656024009454 SLBB domain; Region: SLBB; pfam10531 656024009455 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 656024009456 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 656024009457 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 656024009458 putative dimer interface [polypeptide binding]; other site 656024009459 [2Fe-2S] cluster binding site [ion binding]; other site 656024009460 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 656024009461 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 656024009462 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 656024009463 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 656024009464 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 656024009465 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 656024009466 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 656024009467 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 656024009468 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 656024009469 S-adenosylmethionine binding site [chemical binding]; other site 656024009470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009471 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 656024009472 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 656024009473 active site 656024009474 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 656024009475 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 656024009476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009477 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024009478 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 656024009479 putative active site [active] 656024009480 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024009481 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 656024009482 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 656024009483 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 656024009484 Active Sites [active] 656024009485 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 656024009486 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 656024009487 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 656024009488 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 656024009489 active site 656024009490 phosphorylation site [posttranslational modification] 656024009491 intermolecular recognition site; other site 656024009492 dimerization interface [polypeptide binding]; other site 656024009493 NMT1-like family; Region: NMT1_2; cl15260 656024009494 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 656024009495 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 656024009496 FeS/SAM binding site; other site 656024009497 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 656024009498 DNA binding residues [nucleotide binding] 656024009499 aromatic acid decarboxylase; Validated; Region: PRK05920 656024009500 Flavoprotein; Region: Flavoprotein; cl08021 656024009501 UbiA prenyltransferase family; Region: UbiA; cl00337 656024009502 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 656024009503 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 656024009504 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 656024009505 ResB-like family; Region: ResB; pfam05140 656024009506 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 656024009507 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 656024009508 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 656024009509 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 656024009510 catalytic residues [active] 656024009511 Domain of unknown function (DUF222); Region: DUF222; pfam02720 656024009512 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 656024009513 active site 656024009514 Helix-turn-helix domains; Region: HTH; cl00088 656024009515 putative transposase OrfB; Reviewed; Region: PHA02517 656024009516 HTH-like domain; Region: HTH_21; pfam13276 656024009517 Integrase core domain; Region: rve; cl01316 656024009518 Integrase core domain; Region: rve_3; cl15866 656024009519 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 656024009520 catalytic core [active] 656024009521 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 656024009522 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 656024009523 inhibitor-cofactor binding pocket; inhibition site 656024009524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024009525 catalytic residue [active] 656024009526 Helix-turn-helix domains; Region: HTH; cl00088 656024009527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009528 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 656024009529 Walker A/P-loop; other site 656024009530 ATP binding site [chemical binding]; other site 656024009531 Q-loop/lid; other site 656024009532 ABC transporter signature motif; other site 656024009533 Walker B; other site 656024009534 D-loop; other site 656024009535 H-loop/switch region; other site 656024009536 ABC-2 type transporter; Region: ABC2_membrane; cl11417 656024009537 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 656024009538 dimer interface [polypeptide binding]; other site 656024009539 active site 656024009540 Schiff base residues; other site 656024009541 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024009542 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 656024009543 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 656024009544 active site 656024009545 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 656024009546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009548 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 656024009549 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 656024009550 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 656024009551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009552 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 656024009553 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024009554 Integrase core domain; Region: rve; cl01316 656024009555 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 656024009556 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024009557 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 656024009558 DNA binding residues [nucleotide binding] 656024009559 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024009560 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 656024009561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 656024009562 putative acyl-acceptor binding pocket; other site 656024009563 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024009564 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 656024009565 putative NAD(P) binding site [chemical binding]; other site 656024009566 active site 656024009567 putative substrate binding site [chemical binding]; other site 656024009568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009569 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 656024009570 Proline dehydrogenase; Region: Pro_dh; cl03282 656024009571 Proline dehydrogenase; Region: Pro_dh; cl03282 656024009572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009573 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 656024009574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009575 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 656024009576 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 656024009577 AP (apurinic/apyrimidinic) site pocket; other site 656024009578 Metal-binding active site; metal-binding site 656024009579 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 656024009580 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024009581 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 656024009582 active site 656024009583 phosphorylation site [posttranslational modification] 656024009584 intermolecular recognition site; other site 656024009585 dimerization interface [polypeptide binding]; other site 656024009586 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 656024009587 DNA binding site [nucleotide binding] 656024009588 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 656024009589 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 656024009590 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 656024009591 dimer interface [polypeptide binding]; other site 656024009592 phosphorylation site [posttranslational modification] 656024009593 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 656024009594 ATP binding site [chemical binding]; other site 656024009595 Mg2+ binding site [ion binding]; other site 656024009596 G-X-G motif; other site 656024009597 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 656024009598 PhoU domain; Region: PhoU; pfam01895 656024009599 PhoU domain; Region: PhoU; pfam01895 656024009600 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 656024009601 catalytic core [active] 656024009602 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 656024009603 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 656024009604 metal binding site 2 [ion binding]; metal-binding site 656024009605 putative DNA binding helix; other site 656024009606 metal binding site 1 [ion binding]; metal-binding site 656024009607 dimer interface [polypeptide binding]; other site 656024009608 structural Zn2+ binding site [ion binding]; other site 656024009609 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 656024009610 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 656024009611 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 656024009612 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 656024009613 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 656024009614 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 656024009615 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 656024009616 non-specific DNA binding site [nucleotide binding]; other site 656024009617 salt bridge; other site 656024009618 sequence-specific DNA binding site [nucleotide binding]; other site 656024009619 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 656024009620 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 656024009621 active site 656024009622 catalytic tetrad [active] 656024009623 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 656024009624 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 656024009625 putative ADP-binding pocket [chemical binding]; other site 656024009626 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 656024009627 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 656024009628 heme-binding site [chemical binding]; other site 656024009629 DsrE/DsrF-like family; Region: DrsE; cl00672 656024009630 Protein of unknown function (DUF1416); Region: DUF1416; pfam07210 656024009631 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 656024009632 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 656024009633 active site residue [active] 656024009634 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 656024009635 active site residue [active] 656024009636 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 656024009637 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 656024009638 catalytic residues [active] 656024009639 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 656024009640 MoaE interaction surface [polypeptide binding]; other site 656024009641 MoeB interaction surface [polypeptide binding]; other site 656024009642 thiocarboxylated glycine; other site 656024009643 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 656024009644 DNA binding site [nucleotide binding] 656024009645 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 656024009646 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024009647 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024009648 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 656024009649 DNA binding site [nucleotide binding] 656024009650 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 656024009651 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 656024009652 Walker A/P-loop; other site 656024009653 ATP binding site [chemical binding]; other site 656024009654 Q-loop/lid; other site 656024009655 ABC transporter signature motif; other site 656024009656 Walker B; other site 656024009657 D-loop; other site 656024009658 H-loop/switch region; other site 656024009659 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 656024009660 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 656024009661 dimer interface [polypeptide binding]; other site 656024009662 conserved gate region; other site 656024009663 putative PBP binding loops; other site 656024009664 ABC-ATPase subunit interface; other site 656024009665 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 656024009666 dimer interface [polypeptide binding]; other site 656024009667 conserved gate region; other site 656024009668 putative PBP binding loops; other site 656024009669 ABC-ATPase subunit interface; other site 656024009670 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 656024009671 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 656024009672 anti sigma factor interaction site; other site 656024009673 regulatory phosphorylation site [posttranslational modification]; other site 656024009674 Frankia paralogous domain; Region: Frankia_40_dom; TIGR03917 656024009675 SAF domain; Region: SAF; cl00555 656024009676 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 656024009677 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 656024009678 Ferritin-like domain; Region: Ferritin; pfam00210 656024009679 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 656024009680 dimerization interface [polypeptide binding]; other site 656024009681 DPS ferroxidase diiron center [ion binding]; other site 656024009682 ion pore; other site 656024009683 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 656024009684 metal binding site 2 [ion binding]; metal-binding site 656024009685 putative DNA binding helix; other site 656024009686 metal binding site 1 [ion binding]; metal-binding site 656024009687 dimer interface [polypeptide binding]; other site 656024009688 structural Zn2+ binding site [ion binding]; other site 656024009689 Helix-turn-helix domains; Region: HTH; cl00088 656024009690 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 656024009691 putative active site [active] 656024009692 putative metal binding residues [ion binding]; other site 656024009693 signature motif; other site 656024009694 putative triphosphate binding site [ion binding]; other site 656024009695 dimer interface [polypeptide binding]; other site 656024009696 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024009697 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024009698 CHASE3 domain; Region: CHASE3; cl05000 656024009699 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 656024009700 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 656024009701 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 656024009702 GAF domain; Region: GAF; cl15785 656024009703 GAF domain; Region: GAF; cl15785 656024009704 GAF domain; Region: GAF_2; pfam13185 656024009705 Histidine kinase; Region: HisKA_3; pfam07730 656024009706 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 656024009707 ATP binding site [chemical binding]; other site 656024009708 Mg2+ binding site [ion binding]; other site 656024009709 G-X-G motif; other site 656024009710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 656024009711 AAA domain; Region: AAA_33; pfam13671 656024009712 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 656024009713 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 656024009714 active site 656024009715 phosphorylation site [posttranslational modification] 656024009716 intermolecular recognition site; other site 656024009717 dimerization interface [polypeptide binding]; other site 656024009718 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 656024009719 DNA binding residues [nucleotide binding] 656024009720 dimerization interface [polypeptide binding]; other site 656024009721 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 656024009722 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024009723 Integrase core domain; Region: rve; cl01316 656024009724 Helix-turn-helix domains; Region: HTH; cl00088 656024009725 putative transposase OrfB; Reviewed; Region: PHA02517 656024009726 HTH-like domain; Region: HTH_21; pfam13276 656024009727 Integrase core domain; Region: rve; cl01316 656024009728 Integrase core domain; Region: rve_3; cl15866 656024009729 histidyl-tRNA synthetase; Region: hisS; TIGR00442 656024009730 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 656024009731 dimer interface [polypeptide binding]; other site 656024009732 motif 1; other site 656024009733 active site 656024009734 motif 2; other site 656024009735 motif 3; other site 656024009736 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 656024009737 anticodon binding site; other site 656024009738 adenylate kinase; Reviewed; Region: adk; PRK00279 656024009739 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 656024009740 AMP-binding site [chemical binding]; other site 656024009741 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 656024009742 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 656024009743 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 656024009744 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 656024009745 active site 656024009746 tetramer interface; other site 656024009747 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 656024009748 dimer interface [polypeptide binding]; other site 656024009749 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 656024009750 putative functional site; other site 656024009751 putative MPT binding site; other site 656024009752 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 656024009753 trimer interface [polypeptide binding]; other site 656024009754 dimer interface [polypeptide binding]; other site 656024009755 putative active site [active] 656024009756 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 656024009757 MPT binding site; other site 656024009758 trimer interface [polypeptide binding]; other site 656024009759 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 656024009760 Predicted transcriptional regulators [Transcription]; Region: COG1725 656024009761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024009762 DNA-binding site [nucleotide binding]; DNA binding site 656024009763 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 656024009764 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 656024009765 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 656024009766 dimerization interface [polypeptide binding]; other site 656024009767 putative DNA binding site [nucleotide binding]; other site 656024009768 putative Zn2+ binding site [ion binding]; other site 656024009769 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 656024009770 active site 656024009771 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024009772 Winged helix-turn helix; Region: HTH_33; pfam13592 656024009773 Integrase core domain; Region: rve; cl01316 656024009774 Right handed beta helix region; Region: Beta_helix; pfam13229 656024009775 Helix-turn-helix domains; Region: HTH; cl00088 656024009776 Winged helix-turn helix; Region: HTH_29; pfam13551 656024009777 Helix-turn-helix domains; Region: HTH; cl00088 656024009778 Integrase core domain; Region: rve; cl01316 656024009779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024009780 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024009781 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024009782 Helix-turn-helix domains; Region: HTH; cl00088 656024009783 putative transposase OrfB; Reviewed; Region: PHA02517 656024009784 HTH-like domain; Region: HTH_21; pfam13276 656024009785 Integrase core domain; Region: rve; cl01316 656024009786 Integrase core domain; Region: rve_3; cl15866 656024009787 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 656024009788 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 656024009789 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024009790 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 656024009791 oligomeric interface; other site 656024009792 putative active site [active] 656024009793 homodimer interface [polypeptide binding]; other site 656024009794 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 656024009795 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 656024009796 putative active site [active] 656024009797 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 656024009798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009799 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 656024009800 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 656024009801 AMP-binding enzyme; Region: AMP-binding; cl15778 656024009802 Transposase; Region: DDE_Tnp_ISL3; pfam01610 656024009803 Fic family protein [Function unknown]; Region: COG3177 656024009804 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 656024009805 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 656024009806 S-adenosylmethionine binding site [chemical binding]; other site 656024009807 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 656024009808 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 656024009809 dimer interface [polypeptide binding]; other site 656024009810 phosphorylation site [posttranslational modification] 656024009811 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 656024009812 ATP binding site [chemical binding]; other site 656024009813 Mg2+ binding site [ion binding]; other site 656024009814 G-X-G motif; other site 656024009815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 656024009816 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 656024009817 active site 656024009818 phosphorylation site [posttranslational modification] 656024009819 intermolecular recognition site; other site 656024009820 dimerization interface [polypeptide binding]; other site 656024009821 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 656024009822 DNA binding site [nucleotide binding] 656024009823 ApbE family; Region: ApbE; cl00643 656024009824 FMN-binding domain; Region: FMN_bind; cl01081 656024009825 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 656024009826 FAD binding pocket [chemical binding]; other site 656024009827 FAD binding motif [chemical binding]; other site 656024009828 phosphate binding motif [ion binding]; other site 656024009829 beta-alpha-beta structure motif; other site 656024009830 NAD binding pocket [chemical binding]; other site 656024009831 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 656024009832 S-adenosylmethionine binding site [chemical binding]; other site 656024009833 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 656024009834 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 656024009835 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 656024009836 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 656024009837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009838 NAD(P) binding site [chemical binding]; other site 656024009839 active site 656024009840 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 656024009841 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 656024009842 inhibitor-cofactor binding pocket; inhibition site 656024009843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024009844 catalytic residue [active] 656024009845 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 656024009846 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024009847 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 656024009848 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 656024009849 putative substrate translocation pore; other site 656024009850 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 656024009851 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 656024009852 active site 656024009853 ADP/pyrophosphate binding site [chemical binding]; other site 656024009854 dimerization interface [polypeptide binding]; other site 656024009855 allosteric effector site; other site 656024009856 fructose-1,6-bisphosphate binding site; other site 656024009857 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 656024009858 Predicted acetyltransferase [General function prediction only]; Region: COG3153 656024009859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 656024009860 Coenzyme A binding pocket [chemical binding]; other site 656024009861 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 656024009862 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 656024009863 Walker A motif; other site 656024009864 ATP binding site [chemical binding]; other site 656024009865 Walker B motif; other site 656024009866 arginine finger; other site 656024009867 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024009868 Integrase core domain; Region: rve; cl01316 656024009869 Transcription factor WhiB; Region: Whib; pfam02467 656024009870 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 656024009871 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 656024009872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009873 Walker A/P-loop; other site 656024009874 ATP binding site [chemical binding]; other site 656024009875 Q-loop/lid; other site 656024009876 ABC transporter signature motif; other site 656024009877 Walker B; other site 656024009878 D-loop; other site 656024009879 H-loop/switch region; other site 656024009880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024009881 Walker A/P-loop; other site 656024009882 ATP binding site [chemical binding]; other site 656024009883 Q-loop/lid; other site 656024009884 ABC transporter signature motif; other site 656024009885 Walker B; other site 656024009886 D-loop; other site 656024009887 H-loop/switch region; other site 656024009888 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 656024009889 TM-ABC transporter signature motif; other site 656024009890 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 656024009891 TM-ABC transporter signature motif; other site 656024009892 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 656024009893 putative ligand binding site [chemical binding]; other site 656024009894 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 656024009895 ABC-ATPase subunit interface; other site 656024009896 dimer interface [polypeptide binding]; other site 656024009897 putative PBP binding regions; other site 656024009898 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 656024009899 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 656024009900 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 656024009901 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 656024009902 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 656024009903 intersubunit interface [polypeptide binding]; other site 656024009904 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024009905 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 656024009906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009907 NAD(P) binding site [chemical binding]; other site 656024009908 active site 656024009909 Helix-turn-helix domains; Region: HTH; cl00088 656024009910 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 656024009911 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 656024009912 malonyl-CoA binding site [chemical binding]; other site 656024009913 dimer interface [polypeptide binding]; other site 656024009914 active site 656024009915 product binding site; other site 656024009916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009917 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 656024009918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009919 Helix-turn-helix domains; Region: HTH; cl00088 656024009920 putative transposase OrfB; Reviewed; Region: PHA02517 656024009921 HTH-like domain; Region: HTH_21; pfam13276 656024009922 Integrase core domain; Region: rve; cl01316 656024009923 Integrase core domain; Region: rve_3; cl15866 656024009924 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 656024009925 Cytochrome P450; Region: p450; pfam00067 656024009926 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 656024009927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024009928 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 656024009929 PAS domain; Region: PAS_9; pfam13426 656024009930 putative active site [active] 656024009931 heme pocket [chemical binding]; other site 656024009932 PAS fold; Region: PAS_4; pfam08448 656024009933 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 656024009934 putative active site [active] 656024009935 heme pocket [chemical binding]; other site 656024009936 GAF domain; Region: GAF; cl15785 656024009937 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 656024009938 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 656024009939 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 656024009940 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 656024009941 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024009942 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024009943 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024009944 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 656024009945 active site 656024009946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024009947 Helix-turn-helix domains; Region: HTH; cl00088 656024009948 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024009949 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024009950 active site 656024009951 ATP binding site [chemical binding]; other site 656024009952 substrate binding site [chemical binding]; other site 656024009953 activation loop (A-loop); other site 656024009954 Domain of unknown function (DUF427); Region: DUF427; cl00998 656024009955 Domain of unknown function (DUF427); Region: DUF427; cl00998 656024009956 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 656024009957 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 656024009958 Walker A/P-loop; other site 656024009959 ATP binding site [chemical binding]; other site 656024009960 Q-loop/lid; other site 656024009961 ABC transporter signature motif; other site 656024009962 Walker B; other site 656024009963 D-loop; other site 656024009964 H-loop/switch region; other site 656024009965 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024009966 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 656024009967 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 656024009968 Walker A/P-loop; other site 656024009969 ATP binding site [chemical binding]; other site 656024009970 Q-loop/lid; other site 656024009971 ABC transporter signature motif; other site 656024009972 Walker B; other site 656024009973 D-loop; other site 656024009974 H-loop/switch region; other site 656024009975 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 656024009976 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 656024009977 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 656024009978 dimer interface [polypeptide binding]; other site 656024009979 conserved gate region; other site 656024009980 putative PBP binding loops; other site 656024009981 ABC-ATPase subunit interface; other site 656024009982 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 656024009983 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 656024009984 putative PBP binding loops; other site 656024009985 dimer interface [polypeptide binding]; other site 656024009986 ABC-ATPase subunit interface; other site 656024009987 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 656024009988 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024009989 Integrase core domain; Region: rve; cl01316 656024009990 Survival protein SurE; Region: SurE; cl00448 656024009991 Uncharacterized conserved protein [Function unknown]; Region: COG3391 656024009992 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 656024009993 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 656024009994 D-galactonate transporter; Region: 2A0114; TIGR00893 656024009995 putative substrate translocation pore; other site 656024009996 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 656024009997 Transcriptional regulators [Transcription]; Region: MarR; COG1846 656024009998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 656024009999 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 656024010000 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 656024010001 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024010002 Helix-turn-helix domains; Region: HTH; cl00088 656024010003 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 656024010004 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 656024010005 putative substrate translocation pore; other site 656024010006 Helix-turn-helix domains; Region: HTH; cl00088 656024010007 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 656024010008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 656024010009 Helix-turn-helix domains; Region: HTH; cl00088 656024010010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024010011 NAD(P) binding site [chemical binding]; other site 656024010012 active site 656024010013 Helix-turn-helix domains; Region: HTH; cl00088 656024010014 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010015 Helix-turn-helix domains; Region: HTH; cl00088 656024010016 Integrase core domain; Region: rve; cl01316 656024010017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024010018 Phosphoesterase family; Region: Phosphoesterase; cl15450 656024010019 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 656024010020 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 656024010021 Walker A/P-loop; other site 656024010022 ATP binding site [chemical binding]; other site 656024010023 Q-loop/lid; other site 656024010024 ABC transporter signature motif; other site 656024010025 Walker B; other site 656024010026 D-loop; other site 656024010027 H-loop/switch region; other site 656024010028 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 656024010029 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 656024010030 substrate binding pocket [chemical binding]; other site 656024010031 membrane-bound complex binding site; other site 656024010032 hinge residues; other site 656024010033 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 656024010034 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 656024010035 dimer interface [polypeptide binding]; other site 656024010036 conserved gate region; other site 656024010037 putative PBP binding loops; other site 656024010038 ABC-ATPase subunit interface; other site 656024010039 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 656024010040 dimer interface [polypeptide binding]; other site 656024010041 conserved gate region; other site 656024010042 putative PBP binding loops; other site 656024010043 ABC-ATPase subunit interface; other site 656024010044 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 656024010045 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 656024010046 Helix-turn-helix domains; Region: HTH; cl00088 656024010047 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 656024010048 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 656024010049 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 656024010050 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 656024010051 Walker A/P-loop; other site 656024010052 ATP binding site [chemical binding]; other site 656024010053 Q-loop/lid; other site 656024010054 ABC transporter signature motif; other site 656024010055 Walker B; other site 656024010056 D-loop; other site 656024010057 H-loop/switch region; other site 656024010058 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 656024010059 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 656024010060 FtsX-like permease family; Region: FtsX; cl15850 656024010061 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 656024010062 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 656024010063 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 656024010064 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 656024010065 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 656024010066 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 656024010067 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 656024010068 putative NAD(P) binding site [chemical binding]; other site 656024010069 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 656024010070 Cysteine-rich domain; Region: CCG; pfam02754 656024010071 Cysteine-rich domain; Region: CCG; pfam02754 656024010072 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 656024010073 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; cd00143 656024010074 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 656024010075 metal ion-dependent adhesion site (MIDAS); other site 656024010076 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 656024010077 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 656024010078 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 656024010079 phosphopeptide binding site; other site 656024010080 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 656024010081 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 656024010082 active site 656024010083 HIGH motif; other site 656024010084 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 656024010085 KMSKS motif; other site 656024010086 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 656024010087 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 656024010088 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 656024010089 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 656024010090 homotrimer interaction site [polypeptide binding]; other site 656024010091 zinc binding site [ion binding]; other site 656024010092 CDP-binding sites; other site 656024010093 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 656024010094 substrate binding site; other site 656024010095 dimer interface; other site 656024010096 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 656024010097 Protein of unknown function (DUF461); Region: DUF461; cl01071 656024010098 DNA repair protein RadA; Provisional; Region: PRK11823 656024010099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010100 Walker A motif; other site 656024010101 ATP binding site [chemical binding]; other site 656024010102 Walker B motif; other site 656024010103 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 656024010104 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 656024010105 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 656024010106 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 656024010107 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 656024010108 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 656024010109 minor groove reading motif; other site 656024010110 helix-hairpin-helix signature motif; other site 656024010111 active site 656024010112 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 656024010113 Frankia paralogous domain; Region: Frankia_40_dom; TIGR03917 656024010114 prolyl-tRNA synthetase; Provisional; Region: PRK08661 656024010115 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_arch_euk; cd00778 656024010116 dimer interface [polypeptide binding]; other site 656024010117 motif 1; other site 656024010118 active site 656024010119 motif 2; other site 656024010120 motif 3; other site 656024010121 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 656024010122 anticodon binding site; other site 656024010123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024010124 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024010125 active site 656024010126 ATP binding site [chemical binding]; other site 656024010127 substrate binding site [chemical binding]; other site 656024010128 activation loop (A-loop); other site 656024010129 Ion channel; Region: Ion_trans_2; cl11596 656024010130 Helix-turn-helix domains; Region: HTH; cl00088 656024010131 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010132 Helix-turn-helix domains; Region: HTH; cl00088 656024010133 Integrase core domain; Region: rve; cl01316 656024010134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 656024010135 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010136 Integrase core domain; Region: rve; cl01316 656024010137 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 656024010138 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 656024010139 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 656024010140 nucleotide binding region [chemical binding]; other site 656024010141 ATP-binding site [chemical binding]; other site 656024010142 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 656024010143 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024010144 Integrase core domain; Region: rve; cl01316 656024010145 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 656024010146 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 656024010147 helicase/secretion neighborhood ATPase; Region: heli_sec_ATPase; TIGR03819 656024010148 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 656024010149 ATP binding site [chemical binding]; other site 656024010150 Walker A motif; other site 656024010151 hexamer interface [polypeptide binding]; other site 656024010152 Walker B motif; other site 656024010153 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 656024010154 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 656024010155 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 656024010156 Colicin V production protein; Region: Colicin_V; cl00567 656024010157 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 656024010158 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 656024010159 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 656024010160 putative active site [active] 656024010161 putative CoA binding site [chemical binding]; other site 656024010162 nudix motif; other site 656024010163 metal binding site [ion binding]; metal-binding site 656024010164 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 656024010165 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 656024010166 minor groove reading motif; other site 656024010167 helix-hairpin-helix signature motif; other site 656024010168 substrate binding pocket [chemical binding]; other site 656024010169 active site 656024010170 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 656024010171 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 656024010172 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 656024010173 ligand binding site [chemical binding]; other site 656024010174 flexible hinge region; other site 656024010175 Helix-turn-helix domains; Region: HTH; cl00088 656024010176 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 656024010177 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 656024010178 cyclase homology domain; Region: CHD; cd07302 656024010179 nucleotidyl binding site; other site 656024010180 metal binding site [ion binding]; metal-binding site 656024010181 dimer interface [polypeptide binding]; other site 656024010182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010183 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 656024010184 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 656024010185 homotrimer interaction site [polypeptide binding]; other site 656024010186 putative active site [active] 656024010187 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 656024010188 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 656024010189 DTAP/Switch II; other site 656024010190 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 656024010191 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 656024010192 P loop; other site 656024010193 Nucleotide binding site [chemical binding]; other site 656024010194 DTAP/Switch II; other site 656024010195 Switch I; other site 656024010196 Transcription factor WhiB; Region: Whib; pfam02467 656024010197 Transglycosylase; Region: Transgly; cl07896 656024010198 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 656024010199 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024010200 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 656024010201 GatB domain; Region: GatB_Yqey; cl11497 656024010202 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 656024010203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 656024010204 putative active site [active] 656024010205 putative metal binding site [ion binding]; other site 656024010206 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 656024010207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024010208 S-adenosyl methyltransferase; Region: Methyltransf_19; pfam04672 656024010209 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010210 Integrase core domain; Region: rve; cl01316 656024010211 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 656024010212 anti sigma factor interaction site; other site 656024010213 regulatory phosphorylation site [posttranslational modification]; other site 656024010214 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 656024010215 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 656024010216 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 656024010217 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 656024010218 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 656024010219 active site 656024010220 interdomain interaction site; other site 656024010221 putative metal-binding site [ion binding]; other site 656024010222 nucleotide binding site [chemical binding]; other site 656024010223 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 656024010224 domain I; other site 656024010225 phosphate binding site [ion binding]; other site 656024010226 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 656024010227 domain II; other site 656024010228 domain III; other site 656024010229 nucleotide binding site [chemical binding]; other site 656024010230 DNA binding groove [nucleotide binding] 656024010231 catalytic site [active] 656024010232 domain IV; other site 656024010233 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 656024010234 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 656024010235 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 656024010236 H+ Antiporter protein; Region: 2A0121; TIGR00900 656024010237 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 656024010238 putative substrate translocation pore; other site 656024010239 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 656024010240 TMP-binding site; other site 656024010241 ATP-binding site [chemical binding]; other site 656024010242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010243 DNA polymerase III subunit delta'; Validated; Region: PRK07940 656024010244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010245 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 656024010246 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 656024010247 dimer interface [polypeptide binding]; other site 656024010248 active site 656024010249 CoA binding pocket [chemical binding]; other site 656024010250 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 656024010251 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 656024010252 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 656024010253 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 656024010254 NlpC/P60 family; Region: NLPC_P60; cl11438 656024010255 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 656024010256 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 656024010257 Helix-turn-helix domains; Region: HTH; cl00088 656024010258 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 656024010259 catalytic triad [active] 656024010260 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 656024010261 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 656024010262 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 656024010263 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 656024010264 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 656024010265 nucleoside/Zn binding site; other site 656024010266 dimer interface [polypeptide binding]; other site 656024010267 catalytic motif [active] 656024010268 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 656024010269 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 656024010270 Int/Topo IB signature motif; other site 656024010271 active site 656024010272 DNA binding site [nucleotide binding] 656024010273 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024010274 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 656024010275 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 656024010276 nucleotide binding site [chemical binding]; other site 656024010277 polymerase nucleotide-binding site; other site 656024010278 primase nucleotide-binding site [nucleotide binding]; other site 656024010279 DNA-binding residues [nucleotide binding]; DNA binding site 656024010280 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 656024010281 dimer interface [polypeptide binding]; other site 656024010282 ssDNA binding site [nucleotide binding]; other site 656024010283 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024010284 nuclear protein UL24; Provisional; Region: PHA03215 656024010285 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 656024010286 nudix motif; other site 656024010287 chaperone protein DnaJ; Provisional; Region: PRK14277 656024010288 Helix-turn-helix domains; Region: HTH; cl00088 656024010289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 656024010290 DNA-binding site [nucleotide binding]; DNA binding site 656024010291 UTRA domain; Region: UTRA; cl01230 656024010292 Isochorismatase family; Region: Isochorismatase; pfam00857 656024010293 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 656024010294 catalytic triad [active] 656024010295 conserved cis-peptide bond; other site 656024010296 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 656024010297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024010298 catalytic residue [active] 656024010299 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 656024010300 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 656024010301 GDP-binding site [chemical binding]; other site 656024010302 ACT binding site; other site 656024010303 IMP binding site; other site 656024010304 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 656024010305 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 656024010306 ATP-grasp domain; Region: ATP-grasp_4; cl03087 656024010307 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 656024010308 AIR carboxylase; Region: AIRC; cl00310 656024010309 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 656024010310 adenylosuccinate lyase; Region: purB; TIGR00928 656024010311 tetramer interface [polypeptide binding]; other site 656024010312 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 656024010313 ATP binding site [chemical binding]; other site 656024010314 active site 656024010315 substrate binding site [chemical binding]; other site 656024010316 Pantoate-beta-alanine ligase; Region: PanC; cd00560 656024010317 pantoate--beta-alanine ligase; Region: panC; TIGR00018 656024010318 active site 656024010319 ATP-binding site [chemical binding]; other site 656024010320 pantoate-binding site; other site 656024010321 HXXH motif; other site 656024010322 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 656024010323 tetramerization interface [polypeptide binding]; other site 656024010324 active site 656024010325 L-aspartate oxidase; Provisional; Region: PRK07804 656024010326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024010327 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 656024010328 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 656024010329 dimerization interface [polypeptide binding]; other site 656024010330 active site 656024010331 Type III pantothenate kinase; Region: Pan_kinase; cl09130 656024010332 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 656024010333 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 656024010334 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 656024010335 DXD motif; other site 656024010336 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 656024010337 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 656024010338 PA14 domain; Region: PA14; cl08459 656024010339 Kelch motif; Region: Kelch_1; cl02701 656024010340 kelch-like protein; Provisional; Region: PHA03098 656024010341 Kelch motif; Region: Kelch_1; cl02701 656024010342 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 656024010343 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 656024010344 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 656024010345 Ligand binding site; other site 656024010346 Putative Catalytic site; other site 656024010347 DXD motif; other site 656024010348 GtrA-like protein; Region: GtrA; cl00971 656024010349 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 656024010350 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 656024010351 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 656024010352 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 656024010353 catalytic residue [active] 656024010354 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 656024010355 Clp protease ATP binding subunit; Region: clpC; CHL00095 656024010356 Clp amino terminal domain; Region: Clp_N; pfam02861 656024010357 Clp amino terminal domain; Region: Clp_N; pfam02861 656024010358 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 656024010359 Walker A motif; other site 656024010360 ATP binding site [chemical binding]; other site 656024010361 Walker B motif; other site 656024010362 arginine finger; other site 656024010363 UvrB/uvrC motif; Region: UVR; pfam02151 656024010364 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 656024010365 Walker A motif; other site 656024010366 ATP binding site [chemical binding]; other site 656024010367 Walker B motif; other site 656024010368 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 656024010369 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024010370 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 656024010371 active site 656024010372 metal binding site [ion binding]; metal-binding site 656024010373 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 656024010374 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 656024010375 metal ion-dependent adhesion site (MIDAS); other site 656024010376 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010377 Integrase core domain; Region: rve; cl01316 656024010378 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 656024010379 Integrase core domain; Region: rve; cl01316 656024010380 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 656024010381 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 656024010382 RNHCP domain; Region: RNHCP; pfam12647 656024010383 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 656024010384 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 656024010385 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 656024010386 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 656024010387 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010388 Integrase core domain; Region: rve; cl01316 656024010389 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 656024010390 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 656024010391 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 656024010392 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 656024010393 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 656024010394 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 656024010395 active site 656024010396 motif I; other site 656024010397 motif II; other site 656024010398 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 656024010399 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 656024010400 active site 656024010401 threonine synthase; Validated; Region: PRK07591 656024010402 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 656024010403 homodimer interface [polypeptide binding]; other site 656024010404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024010405 catalytic residue [active] 656024010406 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 656024010407 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 656024010408 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 656024010409 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 656024010410 ring oligomerisation interface [polypeptide binding]; other site 656024010411 ATP/Mg binding site [chemical binding]; other site 656024010412 stacking interactions; other site 656024010413 hinge regions; other site 656024010414 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 656024010415 Scramblase; Region: Scramblase; cl02043 656024010416 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 656024010417 putative active site [active] 656024010418 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 656024010419 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 656024010420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010422 ATP binding site [chemical binding]; other site 656024010423 putative Mg++ binding site [ion binding]; other site 656024010424 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 656024010425 nucleotide binding region [chemical binding]; other site 656024010426 ATP-binding site [chemical binding]; other site 656024010427 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 656024010428 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 656024010429 active site 656024010430 GtrA-like protein; Region: GtrA; cl00971 656024010431 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 656024010432 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 656024010433 protein binding site [polypeptide binding]; other site 656024010434 Bacterial Ig-like domain; Region: Big_5; cl01012 656024010435 Copper resistance protein D; Region: CopD; cl00563 656024010436 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 656024010437 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 656024010438 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 656024010439 MOSC domain; Region: MOSC; pfam03473 656024010440 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 656024010441 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 656024010442 ligand binding site [chemical binding]; other site 656024010443 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 656024010444 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 656024010445 alanine aminotransferase; Validated; Region: PRK08363 656024010446 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 656024010447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 656024010448 homodimer interface [polypeptide binding]; other site 656024010449 catalytic residue [active] 656024010450 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 656024010451 metal binding site 2 [ion binding]; metal-binding site 656024010452 putative DNA binding helix; other site 656024010453 metal binding site 1 [ion binding]; metal-binding site 656024010454 dimer interface [polypeptide binding]; other site 656024010455 structural Zn2+ binding site [ion binding]; other site 656024010456 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 656024010457 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 656024010458 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 656024010459 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 656024010460 TPP-binding site [chemical binding]; other site 656024010461 tetramer interface [polypeptide binding]; other site 656024010462 heterodimer interface [polypeptide binding]; other site 656024010463 phosphorylation loop region [posttranslational modification] 656024010464 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 656024010465 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 656024010466 alpha subunit interface [polypeptide binding]; other site 656024010467 TPP binding site [chemical binding]; other site 656024010468 heterodimer interface [polypeptide binding]; other site 656024010469 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 656024010470 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 656024010471 E3 interaction surface; other site 656024010472 lipoyl attachment site [posttranslational modification]; other site 656024010473 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 656024010474 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 656024010475 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 656024010476 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 656024010477 FAD binding site [chemical binding]; other site 656024010478 substrate binding site [chemical binding]; other site 656024010479 catalytic residues [active] 656024010480 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 656024010481 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 656024010482 cyclase homology domain; Region: CHD; cd07302 656024010483 nucleotidyl binding site; other site 656024010484 metal binding site [ion binding]; metal-binding site 656024010485 dimer interface [polypeptide binding]; other site 656024010486 Predicted ATPase [General function prediction only]; Region: COG3899 656024010487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010488 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 656024010489 anti sigma factor interaction site; other site 656024010490 regulatory phosphorylation site [posttranslational modification]; other site 656024010491 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 656024010492 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 656024010493 active site 656024010494 dimer interface [polypeptide binding]; other site 656024010495 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 656024010496 dimer interface [polypeptide binding]; other site 656024010497 active site 656024010498 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 656024010499 NHL repeat; Region: NHL; pfam01436 656024010500 NHL repeat; Region: NHL; pfam01436 656024010501 NHL repeat; Region: NHL; pfam01436 656024010502 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024010503 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024010504 active site 656024010505 ATP binding site [chemical binding]; other site 656024010506 substrate binding site [chemical binding]; other site 656024010507 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024010508 substrate binding site [chemical binding]; other site 656024010509 activation loop (A-loop); other site 656024010510 activation loop (A-loop); other site 656024010511 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 656024010512 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 656024010513 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 656024010514 N-acetyl-D-glucosamine binding site [chemical binding]; other site 656024010515 catalytic residue [active] 656024010516 NlpC/P60 family; Region: NLPC_P60; cl11438 656024010517 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 656024010518 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 656024010519 AAA-like domain; Region: AAA_10; pfam12846 656024010520 Catalytic domain of Protein Kinases; Region: PKc; cd00180 656024010521 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 656024010522 active site 656024010523 ATP binding site [chemical binding]; other site 656024010524 substrate binding site [chemical binding]; other site 656024010525 activation loop (A-loop); other site 656024010526 Restriction endonuclease; Region: Mrr_cat; cl00516 656024010527 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 656024010528 TIGR03440 family protein; Region: unchr_TIGR03440 656024010529 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 656024010530 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 656024010531 TIGR03442 family protein; Region: TIGR03442 656024010532 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 656024010533 putative active site [active] 656024010534 putative dimer interface [polypeptide binding]; other site 656024010535 probable methyltransferase; Region: TIGR03438 656024010536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024010537 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 656024010538 Dehydratase family; Region: ILVD_EDD; cl00340 656024010539 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 656024010540 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 656024010541 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 656024010542 sequence-specific DNA binding site [nucleotide binding]; other site 656024010543 salt bridge; other site 656024010544 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 656024010545 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 656024010546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 656024010547 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 656024010548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010549 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 656024010550 replicative DNA helicase; Region: DnaB; TIGR00665 656024010551 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 656024010552 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 656024010553 Walker A motif; other site 656024010554 ATP binding site [chemical binding]; other site 656024010555 Walker B motif; other site 656024010556 DNA binding loops [nucleotide binding] 656024010557 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 656024010558 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 656024010559 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 656024010560 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 656024010561 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 656024010562 dimer interface [polypeptide binding]; other site 656024010563 ssDNA binding site [nucleotide binding]; other site 656024010564 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024010565 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 656024010566 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 656024010567 active site 656024010568 metal binding site [ion binding]; metal-binding site 656024010569 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010570 Integrase core domain; Region: rve; cl01316 656024010571 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 656024010572 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 656024010573 Transglycosylase; Region: Transgly; cl07896 656024010574 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 656024010575 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 656024010576 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 656024010577 Helix-turn-helix domains; Region: HTH; cl00088 656024010578 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 656024010579 Winged helix-turn helix; Region: HTH_29; pfam13551 656024010580 Integrase core domain; Region: rve; cl01316 656024010581 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 656024010582 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 656024010583 active site 656024010584 NTP binding site [chemical binding]; other site 656024010585 metal binding triad [ion binding]; metal-binding site 656024010586 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 656024010587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 656024010588 Zn2+ binding site [ion binding]; other site 656024010589 Mg2+ binding site [ion binding]; other site 656024010590 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 656024010591 active site 656024010592 Ap6A binding site [chemical binding]; other site 656024010593 nudix motif; other site 656024010594 metal binding site [ion binding]; metal-binding site 656024010595 MviN-like protein; Region: MVIN; pfam03023 656024010596 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024010597 active site 656024010598 ATP binding site [chemical binding]; other site 656024010599 substrate binding site [chemical binding]; other site 656024010600 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 656024010601 substrate binding site [chemical binding]; other site 656024010602 activation loop (A-loop); other site 656024010603 activation loop (A-loop); other site 656024010604 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 656024010605 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 656024010606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 656024010607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 656024010608 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 656024010609 catalytic residues [active] 656024010610 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024010611 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 656024010612 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 656024010613 active site 656024010614 metal binding site [ion binding]; metal-binding site 656024010615 ParB-like partition proteins; Region: parB_part; TIGR00180 656024010616 ParB-like nuclease domain; Region: ParBc; cl02129 656024010617 KorB domain; Region: KorB; pfam08535 656024010618 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 656024010619 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 656024010620 Magnesium ion binding site [ion binding]; other site 656024010621 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; cl15754 656024010622 uridine kinase; Validated; Region: PRK06696 656024010623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 656024010624 active site 656024010625 gag-polypeptide of LTR copia-type; Region: UBN2; cl15874 656024010626 Integrase core domain; Region: rve; cl01316 656024010627 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_2; pfam07727 656024010628 Ty1/Copia family of RNase HI in long-term repeat retroelements; Region: RNase_HI_RT_Ty1; cd09272 656024010629 RNA/DNA hybrid binding site [nucleotide binding]; other site 656024010630 active site 656024010631 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 656024010632 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 656024010633 dimer interface [polypeptide binding]; other site 656024010634 ssDNA binding site [nucleotide binding]; other site 656024010635 tetramer (dimer of dimers) interface [polypeptide binding]; other site 656024010636 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 656024010637 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 656024010638 P-loop; other site 656024010639 Magnesium ion binding site [ion binding]; other site