-- dump date 20120504_154718 -- class Genbank::misc_feature -- table misc_feature_note -- id note 338966000001 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338966000002 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 338966000003 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 338966000004 PRTRC system protein A; Region: PRTRC_A; TIGR03735 338966000005 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 338966000006 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 338966000007 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 338966000008 active site 338966000009 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 338966000010 protein binding site [polypeptide binding]; other site 338966000011 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 338966000012 putative substrate binding region [chemical binding]; other site 338966000013 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000014 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 338966000015 active site 338966000016 phosphorylation site [posttranslational modification] 338966000017 intermolecular recognition site; other site 338966000018 dimerization interface [polypeptide binding]; other site 338966000019 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 338966000020 PAS domain; Region: PAS_9; pfam13426 338966000021 putative active site [active] 338966000022 heme pocket [chemical binding]; other site 338966000023 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000024 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 338966000025 ATP binding site [chemical binding]; other site 338966000026 Mg2+ binding site [ion binding]; other site 338966000027 G-X-G motif; other site 338966000028 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 338966000029 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 338966000030 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 338966000031 dimerization interface [polypeptide binding]; other site 338966000032 K-box region; Region: K-box; pfam01486 338966000033 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 338966000034 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 338966000035 ATP binding site [chemical binding]; other site 338966000036 Mg2+ binding site [ion binding]; other site 338966000037 G-X-G motif; other site 338966000038 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966000039 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966000040 N-terminal plug; other site 338966000041 ligand-binding site [chemical binding]; other site 338966000042 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 338966000043 putative homodimer interface [polypeptide binding]; other site 338966000044 putative homotetramer interface [polypeptide binding]; other site 338966000045 putative allosteric switch controlling residues; other site 338966000046 putative metal binding site [ion binding]; other site 338966000047 putative homodimer-homodimer interface [polypeptide binding]; other site 338966000048 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966000049 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 338966000050 metal-binding site [ion binding] 338966000051 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966000052 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966000053 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338966000054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966000055 Zn2+ binding site [ion binding]; other site 338966000056 Mg2+ binding site [ion binding]; other site 338966000057 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 338966000058 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 338966000059 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000060 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966000061 FtsX-like permease family; Region: FtsX; cl15850 338966000062 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000063 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 338966000064 Walker A/P-loop; other site 338966000065 ATP binding site [chemical binding]; other site 338966000066 Q-loop/lid; other site 338966000067 ABC transporter signature motif; other site 338966000068 Walker B; other site 338966000069 D-loop; other site 338966000070 H-loop/switch region; other site 338966000071 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966000072 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338966000073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000074 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 338966000075 dimer interface [polypeptide binding]; other site 338966000076 phosphorylation site [posttranslational modification] 338966000077 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 338966000078 ATP binding site [chemical binding]; other site 338966000079 Mg2+ binding site [ion binding]; other site 338966000080 G-X-G motif; other site 338966000081 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966000082 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 338966000083 active site 338966000084 phosphorylation site [posttranslational modification] 338966000085 intermolecular recognition site; other site 338966000086 dimerization interface [polypeptide binding]; other site 338966000087 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 338966000088 Walker A motif; other site 338966000089 ATP binding site [chemical binding]; other site 338966000090 Walker B motif; other site 338966000091 arginine finger; other site 338966000092 Helix-turn-helix domains; Region: HTH; cl00088 338966000093 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966000094 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 338966000095 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 338966000096 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 338966000097 Protein export membrane protein; Region: SecD_SecF; cl14618 338966000098 Sporulation and spore germination; Region: Germane; cl11253 338966000099 Cytochrome C'; Region: Cytochrom_C_2; cl01610 338966000100 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 338966000101 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 338966000102 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966000103 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000104 catalytic residues [active] 338966000105 catalytic nucleophile [active] 338966000106 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000107 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000108 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000109 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000110 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000111 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000112 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 338966000113 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966000114 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 338966000115 S-adenosylmethionine binding site [chemical binding]; other site 338966000116 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000117 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000118 Catalytic site; other site 338966000119 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 338966000120 non-specific DNA binding site [nucleotide binding]; other site 338966000121 salt bridge; other site 338966000122 sequence-specific DNA binding site [nucleotide binding]; other site 338966000123 Domain of unknown function (DUF955); Region: DUF955; cl01076 338966000124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966000125 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 338966000126 putative homodimer interface [polypeptide binding]; other site 338966000127 putative active site [active] 338966000128 catalytic site [active] 338966000129 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966000130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000131 putative Mg++ binding site [ion binding]; other site 338966000132 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 338966000133 nucleotide binding region [chemical binding]; other site 338966000134 ATP-binding site [chemical binding]; other site 338966000135 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000136 catalytic residues [active] 338966000137 catalytic nucleophile [active] 338966000138 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000139 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000140 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000141 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000142 DNA binding site [nucleotide binding] 338966000143 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 338966000144 High-affinity nickel-transport protein; Region: NicO; cl00964 338966000145 Helix-turn-helix domains; Region: HTH; cl00088 338966000146 Winged helix-turn helix; Region: HTH_29; pfam13551 338966000147 Winged helix-turn helix; Region: HTH_33; pfam13592 338966000148 Integrase core domain; Region: rve; cl01316 338966000149 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 338966000150 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 338966000151 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 338966000152 FeoA domain; Region: FeoA; cl00838 338966000153 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966000154 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966000155 G1 box; other site 338966000156 GTP/Mg2+ binding site [chemical binding]; other site 338966000157 Switch I region; other site 338966000158 G2 box; other site 338966000159 G3 box; other site 338966000160 Switch II region; other site 338966000161 G4 box; other site 338966000162 G5 box; other site 338966000163 Nucleoside recognition; Region: Gate; cl00486 338966000164 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966000165 Nucleoside recognition; Region: Gate; cl00486 338966000166 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 338966000167 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 338966000168 metal-binding site [ion binding] 338966000169 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966000170 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 338966000171 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966000172 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966000173 Domain of unknown function DUF302; Region: DUF302; cl01364 338966000174 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 338966000175 lipoprotein signal peptidase; Provisional; Region: PRK14787 338966000176 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 338966000177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000178 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 338966000179 dimerization interface [polypeptide binding]; other site 338966000180 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 338966000181 dimer interface [polypeptide binding]; other site 338966000182 phosphorylation site [posttranslational modification] 338966000183 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 338966000184 ATP binding site [chemical binding]; other site 338966000185 Mg2+ binding site [ion binding]; other site 338966000186 G-X-G motif; other site 338966000187 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966000188 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 338966000189 active site 338966000190 phosphorylation site [posttranslational modification] 338966000191 intermolecular recognition site; other site 338966000192 dimerization interface [polypeptide binding]; other site 338966000193 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 338966000194 DNA binding site [nucleotide binding] 338966000195 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 338966000196 dimerization interface [polypeptide binding]; other site 338966000197 putative DNA binding site [nucleotide binding]; other site 338966000198 putative Zn2+ binding site [ion binding]; other site 338966000199 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000200 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000201 catalytic residues [active] 338966000202 catalytic nucleophile [active] 338966000203 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000204 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000205 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000206 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000207 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966000208 DNA-binding interface [nucleotide binding]; DNA binding site 338966000209 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000210 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000211 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338966000212 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966000213 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 338966000214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966000215 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966000216 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 338966000217 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 338966000218 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 338966000219 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 338966000220 PAS domain; Region: PAS_9; pfam13426 338966000221 putative active site [active] 338966000222 heme pocket [chemical binding]; other site 338966000223 hybrid cluster protein; Provisional; Region: PRK05290 338966000224 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 338966000225 ACS interaction site; other site 338966000226 CODH interaction site; other site 338966000227 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 338966000228 hybrid metal cluster; other site 338966000229 HPP family; Region: HPP; pfam04982 338966000230 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 338966000231 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966000232 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966000233 Transposase domain (DUF772); Region: DUF772; pfam05598 338966000234 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000235 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966000236 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338966000237 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 338966000238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 338966000239 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 338966000240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966000241 Helix-turn-helix domains; Region: HTH; cl00088 338966000242 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 338966000243 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966000244 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000245 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 338966000246 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 338966000247 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000248 FtsX-like permease family; Region: FtsX; cl15850 338966000249 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000250 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 338966000251 Walker A/P-loop; other site 338966000252 ATP binding site [chemical binding]; other site 338966000253 Q-loop/lid; other site 338966000254 ABC transporter signature motif; other site 338966000255 Walker B; other site 338966000256 D-loop; other site 338966000257 H-loop/switch region; other site 338966000258 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966000259 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000260 catalytic residues [active] 338966000261 catalytic nucleophile [active] 338966000262 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000263 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000264 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000265 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000266 DNA binding site [nucleotide binding] 338966000267 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966000268 DNA-binding interface [nucleotide binding]; DNA binding site 338966000269 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000270 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000271 transposase/IS protein; Provisional; Region: PRK09183 338966000272 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 338966000273 Walker A motif; other site 338966000274 ATP binding site [chemical binding]; other site 338966000275 Walker B motif; other site 338966000276 arginine finger; other site 338966000277 Helix-turn-helix domains; Region: HTH; cl00088 338966000278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966000279 Integrase core domain; Region: rve; cl01316 338966000280 Integrase core domain; Region: rve_3; cl15866 338966000281 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000282 Protein of unknown function (DUF3232); Region: DUF3232; pfam11554 338966000283 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 338966000284 dimer interface [polypeptide binding]; other site 338966000285 ssDNA binding site [nucleotide binding]; other site 338966000286 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966000287 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966000288 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 338966000289 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338966000290 DNA primase, catalytic core; Region: dnaG; TIGR01391 338966000291 CHC2 zinc finger; Region: zf-CHC2; cl15369 338966000292 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 338966000293 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 338966000294 active site 338966000295 metal binding site [ion binding]; metal-binding site 338966000296 interdomain interaction site; other site 338966000297 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966000298 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 338966000299 Walker A motif; other site 338966000300 ATP binding site [chemical binding]; other site 338966000301 Walker B motif; other site 338966000302 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 338966000303 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966000304 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 338966000305 metal ion-dependent adhesion site (MIDAS); other site 338966000306 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966000307 MPN+ (JAMM) motif; other site 338966000308 Zinc-binding site [ion binding]; other site 338966000309 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966000310 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 338966000311 non-specific DNA binding site [nucleotide binding]; other site 338966000312 salt bridge; other site 338966000313 sequence-specific DNA binding site [nucleotide binding]; other site 338966000314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000315 AAA domain; Region: AAA_21; pfam13304 338966000316 Walker A/P-loop; other site 338966000317 ATP binding site [chemical binding]; other site 338966000318 Q-loop/lid; other site 338966000319 ABC transporter signature motif; other site 338966000320 Walker B; other site 338966000321 D-loop; other site 338966000322 H-loop/switch region; other site 338966000323 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000324 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000325 Catalytic site; other site 338966000326 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 338966000327 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 338966000328 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 338966000329 active site 338966000330 Int/Topo IB signature motif; other site 338966000331 DNA binding site [nucleotide binding] 338966000332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966000333 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 338966000334 active site 338966000335 phosphorylation site [posttranslational modification] 338966000336 intermolecular recognition site; other site 338966000337 dimerization interface [polypeptide binding]; other site 338966000338 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 338966000339 DNA binding site [nucleotide binding] 338966000340 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 338966000341 IHF dimer interface [polypeptide binding]; other site 338966000342 IHF - DNA interface [nucleotide binding]; other site 338966000343 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 338966000344 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 338966000345 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338966000346 putative recombination protein RecB; Provisional; Region: PRK13909 338966000347 Bacterial SH3 domain; Region: SH3_3; cl02551 338966000348 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 338966000349 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966000350 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 338966000351 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 338966000352 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 338966000353 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 338966000354 TraU protein; Region: TraU; cl06067 338966000355 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 338966000356 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 338966000357 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 338966000358 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 338966000359 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 338966000360 TraK protein; Region: TraK; pfam06586 338966000361 TraE protein; Region: TraE; cl05060 338966000362 TraL protein; Region: TraL; cl06278 338966000363 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 338966000364 dimerization domain [polypeptide binding]; other site 338966000365 dimer interface [polypeptide binding]; other site 338966000366 catalytic residues [active] 338966000367 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966000368 ligand binding site [chemical binding]; other site 338966000369 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966000370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000371 Initiator Replication protein; Region: Rep_3; cl03080 338966000372 Initiator Replication protein; Region: Rep_3; cl03080 338966000373 plasmid segregation protein ParM; Provisional; Region: PRK13917 338966000374 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966000375 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 338966000376 active site 338966000377 phosphorylation site [posttranslational modification] 338966000378 intermolecular recognition site; other site 338966000379 dimerization interface [polypeptide binding]; other site 338966000380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000381 Helix-turn-helix domains; Region: HTH; cl00088 338966000382 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 338966000383 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 338966000384 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966000385 catalytic residue [active] 338966000386 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 338966000387 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 338966000388 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 338966000389 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966000390 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 338966000391 catalytic residues [active] 338966000392 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 338966000393 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 338966000394 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000395 Family description; Region: UvrD_C_2; cl15862 338966000396 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 338966000397 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000399 dimer interface [polypeptide binding]; other site 338966000400 putative CheW interface [polypeptide binding]; other site 338966000401 Predicted transcriptional regulator [Transcription]; Region: COG4957 338966000402 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 338966000403 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338966000404 active site 338966000405 catalytic site [active] 338966000406 substrate binding site [chemical binding]; other site 338966000407 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 338966000408 non-specific DNA binding site [nucleotide binding]; other site 338966000409 salt bridge; other site 338966000410 sequence-specific DNA binding site [nucleotide binding]; other site 338966000411 HipA N-terminal domain; Region: Couple_hipA; cl11853 338966000412 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 338966000413 HipA-like N-terminal domain; Region: HipA_N; pfam07805 338966000414 HipA-like C-terminal domain; Region: HipA_C; pfam07804 338966000415 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 338966000416 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 338966000417 Helix-turn-helix domains; Region: HTH; cl00088 338966000418 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 338966000419 ParB-like nuclease domain; Region: ParBc; cl02129 338966000420 PRTRC system protein E; Region: PRTRC_E; TIGR03741 338966000421 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 338966000422 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 338966000423 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 338966000424 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 338966000425 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 338966000426 ATP binding site [chemical binding]; other site 338966000427 substrate interface [chemical binding]; other site 338966000428 Conjugal transfer protein TraD; Region: TraD; cl05753 338966000429 MobA/MobL family; Region: MobA_MobL; pfam03389 338966000430 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000431 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000432 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000433 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000434 catalytic residues [active] 338966000435 catalytic nucleophile [active] 338966000436 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000437 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000438 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000439 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000440 DNA binding site [nucleotide binding] 338966000441 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966000442 DNA-binding interface [nucleotide binding]; DNA binding site 338966000443 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966000444 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000445 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 338966000446 Walker A/P-loop; other site 338966000447 ATP binding site [chemical binding]; other site 338966000448 Q-loop/lid; other site 338966000449 ABC transporter signature motif; other site 338966000450 Walker B; other site 338966000451 D-loop; other site 338966000452 H-loop/switch region; other site 338966000453 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000454 FtsX-like permease family; Region: FtsX; cl15850 338966000455 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000456 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 338966000457 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 338966000458 division inhibitor protein; Provisional; Region: slmA; PRK09480 338966000459 Helix-turn-helix domains; Region: HTH; cl00088 338966000460 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 338966000461 non-specific DNA binding site [nucleotide binding]; other site 338966000462 salt bridge; other site 338966000463 sequence-specific DNA binding site [nucleotide binding]; other site 338966000464 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 338966000465 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 338966000466 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966000467 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 338966000468 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 338966000469 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966000470 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000471 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000472 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966000473 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000474 catalytic residues [active] 338966000475 catalytic nucleophile [active] 338966000476 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000477 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000478 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000479 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000480 DNA binding site [nucleotide binding] 338966000481 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966000482 DNA-binding interface [nucleotide binding]; DNA binding site 338966000483 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966000484 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000485 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 338966000486 Walker A/P-loop; other site 338966000487 ATP binding site [chemical binding]; other site 338966000488 Q-loop/lid; other site 338966000489 ABC transporter signature motif; other site 338966000490 Walker B; other site 338966000491 D-loop; other site 338966000492 H-loop/switch region; other site 338966000493 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000494 FtsX-like permease family; Region: FtsX; cl15850 338966000495 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000496 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 338966000497 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 338966000498 division inhibitor protein; Provisional; Region: slmA; PRK09480 338966000499 Helix-turn-helix domains; Region: HTH; cl00088 338966000500 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 338966000501 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 338966000502 cofactor binding site; other site 338966000503 DNA binding site [nucleotide binding] 338966000504 substrate interaction site [chemical binding]; other site 338966000505 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966000506 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 338966000507 Initiator Replication protein; Region: Rep_3; cl03080 338966000508 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 338966000509 DnaA N-terminal domain; Region: DnaA_N; pfam11638 338966000510 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 338966000511 Walker A motif; other site 338966000512 ATP binding site [chemical binding]; other site 338966000513 Walker B motif; other site 338966000514 arginine finger; other site 338966000515 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 338966000516 DnaA box-binding interface [nucleotide binding]; other site 338966000517 DNA polymerase III subunit beta; Validated; Region: PRK05643 338966000518 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 338966000519 putative DNA binding surface [nucleotide binding]; other site 338966000520 dimer interface [polypeptide binding]; other site 338966000521 beta-clamp/clamp loader binding surface; other site 338966000522 beta-clamp/translesion DNA polymerase binding surface; other site 338966000523 recombination protein F; Reviewed; Region: recF; PRK00064 338966000524 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000525 Walker A/P-loop; other site 338966000526 ATP binding site [chemical binding]; other site 338966000527 Q-loop/lid; other site 338966000528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000529 ABC transporter signature motif; other site 338966000530 Walker B; other site 338966000531 D-loop; other site 338966000532 H-loop/switch region; other site 338966000533 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 338966000534 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 338966000535 Mg2+ binding site [ion binding]; other site 338966000536 G-X-G motif; other site 338966000537 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 338966000538 anchoring element; other site 338966000539 dimer interface [polypeptide binding]; other site 338966000540 ATP binding site [chemical binding]; other site 338966000541 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 338966000542 active site 338966000543 putative metal-binding site [ion binding]; other site 338966000544 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 338966000545 DNA gyrase subunit A; Validated; Region: PRK05560 338966000546 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 338966000547 CAP-like domain; other site 338966000548 active site 338966000549 primary dimer interface [polypeptide binding]; other site 338966000550 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000551 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000552 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000553 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000554 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000555 HEAT repeats; Region: HEAT_2; pfam13646 338966000556 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 338966000557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000558 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 338966000559 Fic/DOC family; Region: Fic; cl00960 338966000560 RmuC family; Region: RmuC; pfam02646 338966000561 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 338966000562 homotrimer interaction site [polypeptide binding]; other site 338966000563 zinc binding site [ion binding]; other site 338966000564 CDP-binding sites; other site 338966000565 chaperone protein DnaJ; Provisional; Region: PRK14299 338966000566 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 338966000567 HSP70 interaction site [polypeptide binding]; other site 338966000568 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338966000569 substrate binding site [polypeptide binding]; other site 338966000570 dimer interface [polypeptide binding]; other site 338966000571 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 338966000572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000573 Protein of unknown function DUF45; Region: DUF45; cl00636 338966000574 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 338966000575 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 338966000576 dimer interface [polypeptide binding]; other site 338966000577 active site 338966000578 CoA binding pocket [chemical binding]; other site 338966000579 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 338966000580 active site 338966000581 dimerization interface [polypeptide binding]; other site 338966000582 Transposase domain (DUF772); Region: DUF772; pfam05598 338966000583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000584 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966000585 YGGT family; Region: YGGT; cl00508 338966000586 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 338966000587 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 338966000588 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 338966000589 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 338966000590 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 338966000591 ADP-glucose phosphorylase; Region: PLN02643 338966000592 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 338966000593 dimer interface [polypeptide binding]; other site 338966000594 active site 338966000595 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 338966000596 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 338966000597 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 338966000598 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 338966000599 active site 338966000600 Substrate binding site; other site 338966000601 Mg++ binding site; other site 338966000602 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 338966000603 putative trimer interface [polypeptide binding]; other site 338966000604 putative CoA binding site [chemical binding]; other site 338966000605 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 338966000606 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 338966000607 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 338966000608 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000609 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 338966000610 active site 338966000611 phosphorylation site [posttranslational modification] 338966000612 intermolecular recognition site; other site 338966000613 dimerization interface [polypeptide binding]; other site 338966000614 GAF domain; Region: GAF_2; pfam13185 338966000615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000616 GAF domain; Region: GAF; cl15785 338966000617 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 338966000618 dimer interface [polypeptide binding]; other site 338966000619 phosphorylation site [posttranslational modification] 338966000620 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 338966000621 ATP binding site [chemical binding]; other site 338966000622 G-X-G motif; other site 338966000623 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 338966000624 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 338966000625 active site 338966000626 HIGH motif; other site 338966000627 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 338966000628 KMSKS motif; other site 338966000629 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 338966000630 tRNA binding surface [nucleotide binding]; other site 338966000631 anticodon binding site; other site 338966000632 oxaloacetate decarboxylase; Provisional; Region: PRK12330 338966000633 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966000634 active site 338966000635 catalytic residues [active] 338966000636 metal binding site [ion binding]; metal-binding site 338966000637 homodimer binding site [polypeptide binding]; other site 338966000638 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 338966000639 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966000640 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966000641 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 338966000642 carboxyltransferase (CT) interaction site; other site 338966000643 biotinylation site [posttranslational modification]; other site 338966000644 Protein of unknown function, DUF606; Region: DUF606; cl01273 338966000645 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966000646 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966000647 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966000648 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 338966000649 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 338966000650 FMN binding site [chemical binding]; other site 338966000651 substrate binding site [chemical binding]; other site 338966000652 putative catalytic residue [active] 338966000653 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 338966000654 dimerization interface [polypeptide binding]; other site 338966000655 putative DNA binding site [nucleotide binding]; other site 338966000656 putative Zn2+ binding site [ion binding]; other site 338966000657 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 338966000658 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966000659 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 338966000660 S-adenosylmethionine binding site [chemical binding]; other site 338966000661 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966000662 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 338966000663 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 338966000664 oligomerization interface [polypeptide binding]; other site 338966000665 active site 338966000666 NAD+ binding site [chemical binding]; other site 338966000667 Cache domain; Region: Cache_2; cl07034 338966000668 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 338966000669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000671 dimer interface [polypeptide binding]; other site 338966000672 putative CheW interface [polypeptide binding]; other site 338966000673 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 338966000674 active site 338966000675 catalytic triad [active] 338966000676 oxyanion hole [active] 338966000677 switch loop; other site 338966000678 S-adenosylmethionine synthetase; Validated; Region: PRK05250 338966000679 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 338966000680 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 338966000681 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 338966000682 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338966000683 tartrate dehydrogenase; Provisional; Region: PRK08194 338966000684 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 338966000685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000686 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966000687 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 338966000688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000689 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966000690 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 338966000691 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 338966000692 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338966000693 active site 338966000694 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 338966000695 Ligand Binding Site [chemical binding]; other site 338966000696 Molecular Tunnel; other site 338966000697 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 338966000698 Phage Tail Collar Domain; Region: Collar; pfam07484 338966000699 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 338966000700 binding surface 338966000701 TPR motif; other site 338966000702 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966000703 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966000704 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 338966000705 binding surface 338966000706 TPR motif; other site 338966000707 TPR repeat; Region: TPR_11; pfam13414 338966000708 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 338966000709 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_5; cd08823 338966000710 putative active site [active] 338966000711 putative substrate binding site [chemical binding]; other site 338966000712 putative cosubstrate binding site; other site 338966000713 catalytic site [active] 338966000714 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 338966000715 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 338966000716 active site 338966000717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000718 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 338966000719 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 338966000720 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966000721 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 338966000722 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966000723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000724 Walker A/P-loop; other site 338966000725 ATP binding site [chemical binding]; other site 338966000726 Q-loop/lid; other site 338966000727 ABC transporter signature motif; other site 338966000728 Walker B; other site 338966000729 D-loop; other site 338966000730 H-loop/switch region; other site 338966000731 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 338966000732 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 338966000733 Active Sites [active] 338966000734 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 338966000735 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 338966000736 CysD dimerization site [polypeptide binding]; other site 338966000737 G1 box; other site 338966000738 putative GEF interaction site [polypeptide binding]; other site 338966000739 GTP/Mg2+ binding site [chemical binding]; other site 338966000740 Switch I region; other site 338966000741 G2 box; other site 338966000742 G3 box; other site 338966000743 Switch II region; other site 338966000744 G4 box; other site 338966000745 G5 box; other site 338966000746 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 338966000747 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 338966000748 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 338966000749 ligand-binding site [chemical binding]; other site 338966000750 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338966000751 Peptidase family U32; Region: Peptidase_U32; cl03113 338966000752 Collagenase; Region: DUF3656; pfam12392 338966000753 Peptidase family U32; Region: Peptidase_U32; cl03113 338966000754 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338966000755 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 338966000756 dimer interface [polypeptide binding]; other site 338966000757 phosphorylation site [posttranslational modification] 338966000758 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 338966000759 ATP binding site [chemical binding]; other site 338966000760 Mg2+ binding site [ion binding]; other site 338966000761 G-X-G motif; other site 338966000762 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966000763 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 338966000764 active site 338966000765 phosphorylation site [posttranslational modification] 338966000766 intermolecular recognition site; other site 338966000767 dimerization interface [polypeptide binding]; other site 338966000768 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 338966000769 membrane-bound complex binding site; other site 338966000770 hinge residues; other site 338966000771 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000772 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000773 Catalytic site; other site 338966000774 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966000775 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 338966000776 active site 338966000777 phosphorylation site [posttranslational modification] 338966000778 hydrogenase 4 subunit B; Validated; Region: PRK06521 338966000779 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966000780 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 338966000781 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 338966000782 nucleoside/Zn binding site; other site 338966000783 dimer interface [polypeptide binding]; other site 338966000784 catalytic motif [active] 338966000785 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 338966000786 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 338966000787 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 338966000788 Glutamate binding site [chemical binding]; other site 338966000789 homodimer interface [polypeptide binding]; other site 338966000790 NAD binding site [chemical binding]; other site 338966000791 catalytic residues [active] 338966000792 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338966000793 Colicin V production protein; Region: Colicin_V; cl00567 338966000794 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 338966000795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000796 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000797 dimer interface [polypeptide binding]; other site 338966000798 putative CheW interface [polypeptide binding]; other site 338966000799 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338966000800 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966000801 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966000802 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338966000803 Transglycosylase; Region: Transgly; cl07896 338966000804 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 338966000805 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966000806 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 338966000807 CoenzymeA binding site [chemical binding]; other site 338966000808 subunit interaction site [polypeptide binding]; other site 338966000809 PHB binding site; other site 338966000810 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 338966000811 Fe-S cluster binding site [ion binding]; other site 338966000812 active site 338966000813 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16917 338966000814 RHS Repeat; Region: RHS_repeat; cl11982 338966000815 RHS Repeat; Region: RHS_repeat; cl11982 338966000816 RHS Repeat; Region: RHS_repeat; cl11982 338966000817 RHS Repeat; Region: RHS_repeat; cl11982 338966000818 RHS Repeat; Region: RHS_repeat; cl11982 338966000819 RHS Repeat; Region: RHS_repeat; cl11982 338966000820 RHS Repeat; Region: RHS_repeat; cl11982 338966000821 RHS Repeat; Region: RHS_repeat; cl11982 338966000822 RHS Repeat; Region: RHS_repeat; cl11982 338966000823 RHS Repeat; Region: RHS_repeat; cl11982 338966000824 RHS Repeat; Region: RHS_repeat; cl11982 338966000825 RHS Repeat; Region: RHS_repeat; cl11982 338966000826 RHS Repeat; Region: RHS_repeat; cl11982 338966000827 RHS Repeat; Region: RHS_repeat; cl11982 338966000828 RHS Repeat; Region: RHS_repeat; cl11982 338966000829 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 338966000830 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 338966000831 PAS fold; Region: PAS_4; pfam08448 338966000832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966000833 metal binding site [ion binding]; metal-binding site 338966000834 active site 338966000835 I-site; other site 338966000836 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 338966000837 Chemotaxis phosphatase CheX; Region: CheX; cl15816 338966000838 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000839 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 338966000840 active site 338966000841 phosphorylation site [posttranslational modification] 338966000842 intermolecular recognition site; other site 338966000843 dimerization interface [polypeptide binding]; other site 338966000844 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 338966000845 Flavoprotein; Region: Flavoprotein; cl08021 338966000846 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 338966000847 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966000848 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 338966000849 Rubredoxin; Region: Rubredoxin; pfam00301 338966000850 iron binding site [ion binding]; other site 338966000851 rod shape-determining protein MreD; Region: MreD; cl01087 338966000852 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 338966000853 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966000854 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 338966000855 putative active site [active] 338966000856 heme pocket [chemical binding]; other site 338966000857 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 338966000858 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 338966000859 ATP binding site [chemical binding]; other site 338966000860 Mg2+ binding site [ion binding]; other site 338966000861 G-X-G motif; other site 338966000862 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000863 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 338966000864 active site 338966000865 phosphorylation site [posttranslational modification] 338966000866 intermolecular recognition site; other site 338966000867 dimerization interface [polypeptide binding]; other site 338966000868 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 338966000869 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 338966000870 glutaminase active site [active] 338966000871 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 338966000872 dimer interface [polypeptide binding]; other site 338966000873 active site 338966000874 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 338966000875 dimer interface [polypeptide binding]; other site 338966000876 active site 338966000877 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 338966000878 substrate binding site [chemical binding]; other site 338966000879 oxyanion hole (OAH) forming residues; other site 338966000880 trimer interface [polypeptide binding]; other site 338966000881 Fic family protein [Function unknown]; Region: COG3177 338966000882 Fic/DOC family; Region: Fic; cl00960 338966000883 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 338966000884 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 338966000885 active site 338966000886 metal binding site [ion binding]; metal-binding site 338966000887 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 338966000888 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 338966000889 non-specific DNA binding site [nucleotide binding]; other site 338966000890 salt bridge; other site 338966000891 sequence-specific DNA binding site [nucleotide binding]; other site 338966000892 Domain of unknown function (DUF955); Region: DUF955; cl01076 338966000893 Transposase domain (DUF772); Region: DUF772; pfam05598 338966000894 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000895 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966000896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000897 AAA domain; Region: AAA_13; pfam13166 338966000898 Walker A/P-loop; other site 338966000899 ATP binding site [chemical binding]; other site 338966000900 Q-loop/lid; other site 338966000901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000902 ABC transporter signature motif; other site 338966000903 Walker B; other site 338966000904 D-loop; other site 338966000905 H-loop/switch region; other site 338966000906 transposase/IS protein; Provisional; Region: PRK09183 338966000907 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 338966000908 Walker A motif; other site 338966000909 ATP binding site [chemical binding]; other site 338966000910 Walker B motif; other site 338966000911 arginine finger; other site 338966000912 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 338966000913 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 338966000914 active site 338966000915 catalytic tetrad [active] 338966000916 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 338966000917 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 338966000918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338966000919 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 338966000920 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966000921 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 338966000922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966000923 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 338966000924 DNA binding residues [nucleotide binding] 338966000925 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000926 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 338966000927 active site 338966000928 phosphorylation site [posttranslational modification] 338966000929 intermolecular recognition site; other site 338966000930 dimerization interface [polypeptide binding]; other site 338966000931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966000932 metal binding site [ion binding]; metal-binding site 338966000933 active site 338966000934 I-site; other site 338966000935 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 338966000936 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 338966000937 PAS fold; Region: PAS_3; pfam08447 338966000938 putative active site [active] 338966000939 heme pocket [chemical binding]; other site 338966000940 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 338966000941 dimer interface [polypeptide binding]; other site 338966000942 phosphorylation site [posttranslational modification] 338966000943 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 338966000944 ATP binding site [chemical binding]; other site 338966000945 Mg2+ binding site [ion binding]; other site 338966000946 G-X-G motif; other site 338966000947 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 338966000948 catalytic residues [active] 338966000949 dimer interface [polypeptide binding]; other site 338966000950 Protein of unknown function (DUF523); Region: DUF523; cl00733 338966000951 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 338966000952 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966000953 Protein of unknown function, DUF393; Region: DUF393; cl01136 338966000954 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 338966000955 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 338966000956 catalytic residues [active] 338966000957 dimer interface [polypeptide binding]; other site 338966000958 SOUL heme-binding protein; Region: SOUL; pfam04832 338966000959 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 338966000960 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 338966000961 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 338966000962 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 338966000963 S-adenosylmethionine binding site [chemical binding]; other site 338966000964 Uncharacterized conserved protein [Function unknown]; Region: COG3496 338966000965 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 338966000966 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 338966000967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000968 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 338966000969 Phospholipid methyltransferase; Region: PEMT; cl00763 338966000970 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966000971 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 338966000972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000973 UV-endonuclease UvdE; Region: UvdE; cl10036 338966000974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966000975 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966000976 Transposase, Mutator family; Region: Transposase_mut; pfam00872 338966000977 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 338966000978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000979 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 338966000980 Transposase, Mutator family; Region: Transposase_mut; pfam00872 338966000981 MULE transposase domain; Region: MULE; pfam10551 338966000982 CHASE3 domain; Region: CHASE3; cl05000 338966000983 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000984 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000985 dimer interface [polypeptide binding]; other site 338966000986 putative CheW interface [polypeptide binding]; other site 338966000987 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 338966000988 non-specific DNA binding site [nucleotide binding]; other site 338966000989 salt bridge; other site 338966000990 sequence-specific DNA binding site [nucleotide binding]; other site 338966000991 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966000992 Helix-turn-helix domains; Region: HTH; cl00088 338966000993 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000994 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 338966000995 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 338966000996 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000997 FtsX-like permease family; Region: FtsX; cl15850 338966000998 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000999 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 338966001000 Walker A/P-loop; other site 338966001001 ATP binding site [chemical binding]; other site 338966001002 Q-loop/lid; other site 338966001003 ABC transporter signature motif; other site 338966001004 Walker B; other site 338966001005 D-loop; other site 338966001006 H-loop/switch region; other site 338966001007 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 338966001008 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966001009 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 338966001010 catalytic residues [active] 338966001011 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 338966001012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001013 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966001014 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 338966001015 non-specific DNA binding site [nucleotide binding]; other site 338966001016 salt bridge; other site 338966001017 sequence-specific DNA binding site [nucleotide binding]; other site 338966001018 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 338966001019 WYL domain; Region: WYL; cl14852 338966001020 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 338966001021 SlyX; Region: SlyX; cl01090 338966001022 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966001023 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 338966001024 Protein of unknown function (DUF1410); Region: DUF1410; pfam07198 338966001025 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 338966001026 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 338966001027 DNA binding residues [nucleotide binding] 338966001028 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 338966001029 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 338966001030 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 338966001031 Walker A motif; other site 338966001032 ATP binding site [chemical binding]; other site 338966001033 Walker B motif; other site 338966001034 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966001035 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 338966001036 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966001037 active site 338966001038 substrate binding site [chemical binding]; other site 338966001039 Mg2+ binding site [ion binding]; other site 338966001040 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 338966001041 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338966001042 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 338966001043 generic binding surface II; other site 338966001044 generic binding surface I; other site 338966001045 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 338966001046 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 338966001047 IHF - DNA interface [nucleotide binding]; other site 338966001048 IHF dimer interface [polypeptide binding]; other site 338966001049 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 338966001050 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; cl00470 338966001051 Cupin domain; Region: Cupin_2; cl09118 338966001052 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966001053 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 338966001054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001055 Family description; Region: UvrD_C_2; cl15862 338966001056 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966001057 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966001058 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 338966001059 DNA polymerase IV; Reviewed; Region: PRK03103 338966001060 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966001061 active site 338966001062 DNA binding site [nucleotide binding] 338966001063 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966001064 LexA repressor; Validated; Region: PRK00215 338966001065 Helix-turn-helix domains; Region: HTH; cl00088 338966001066 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 338966001067 Catalytic site [active] 338966001068 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 338966001069 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966001070 catalytic residue [active] 338966001071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001072 AAA-like domain; Region: AAA_10; pfam12846 338966001073 Walker A motif; other site 338966001074 ATP binding site [chemical binding]; other site 338966001075 Walker B motif; other site 338966001076 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966001077 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 338966001078 catalytic residues [active] 338966001079 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 338966001080 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 338966001081 dimer interface [polypeptide binding]; other site 338966001082 ssDNA binding site [nucleotide binding]; other site 338966001083 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966001084 TSCPD domain; Region: TSCPD; cl14834 338966001085 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966001086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001087 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 338966001088 WGR domain; Region: WGR; cl01581 338966001089 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966001090 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 338966001091 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 338966001092 metal ion-dependent adhesion site (MIDAS); other site 338966001093 CHC2 zinc finger; Region: zf-CHC2; cl15369 338966001094 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966001095 MPN+ (JAMM) motif; other site 338966001096 Zinc-binding site [ion binding]; other site 338966001097 Fic family protein [Function unknown]; Region: COG3177 338966001098 Fic/DOC family; Region: Fic; cl00960 338966001099 Predicted transcriptional regulator [Transcription]; Region: COG2378 338966001100 Helix-turn-helix domains; Region: HTH; cl00088 338966001101 WYL domain; Region: WYL; cl14852 338966001102 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 338966001103 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 338966001104 ligand binding site [chemical binding]; other site 338966001105 active site 338966001106 UGI interface [polypeptide binding]; other site 338966001107 catalytic site [active] 338966001108 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 338966001109 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 338966001110 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 338966001111 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 338966001112 active site 338966001113 DNA binding site [nucleotide binding] 338966001114 Int/Topo IB signature motif; other site 338966001115 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 338966001116 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 338966001117 active site 338966001118 substrate binding site [chemical binding]; other site 338966001119 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 338966001120 hypothetical protein; Provisional; Region: PRK06851 338966001121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001122 ABC transporter signature motif; other site 338966001123 Walker B; other site 338966001124 D-loop; other site 338966001125 H-loop/switch region; other site 338966001126 Restriction endonuclease [Defense mechanisms]; Region: COG3587 338966001127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001128 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966001129 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966001130 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 338966001131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001133 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 338966001134 Family description; Region: UvrD_C_2; cl15862 338966001135 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 338966001136 putative active site [active] 338966001137 catalytic site [active] 338966001138 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 338966001139 ATP binding site [chemical binding]; other site 338966001140 putative Mg++ binding site [ion binding]; other site 338966001141 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 338966001142 nucleotide binding region [chemical binding]; other site 338966001143 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 338966001144 ATP-binding site [chemical binding]; other site 338966001145 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 338966001146 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 338966001147 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 338966001148 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 338966001149 TraU protein; Region: TraU; cl06067 338966001150 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 338966001151 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 338966001152 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 338966001153 Domain of unknown function DUF87; Region: DUF87; pfam01935 338966001154 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 338966001155 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 338966001156 TraK protein; Region: TraK; pfam06586 338966001157 TraE protein; Region: TraE; cl05060 338966001158 TraL protein; Region: TraL; cl06278 338966001159 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 338966001160 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 338966001161 dimerization domain [polypeptide binding]; other site 338966001162 dimer interface [polypeptide binding]; other site 338966001163 catalytic residues [active] 338966001164 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001165 ligand binding site [chemical binding]; other site 338966001166 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 338966001167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001168 HipA N-terminal domain; Region: Couple_hipA; cl11853 338966001169 HipA-like N-terminal domain; Region: HipA_N; pfam07805 338966001170 HipA-like C-terminal domain; Region: HipA_C; pfam07804 338966001171 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 338966001172 non-specific DNA binding site [nucleotide binding]; other site 338966001173 salt bridge; other site 338966001174 sequence-specific DNA binding site [nucleotide binding]; other site 338966001175 plasmid segregation protein ParM; Provisional; Region: PRK13917 338966001176 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 338966001177 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 338966001178 DNA binding residues [nucleotide binding] 338966001179 TrfA protein; Region: TrfA; pfam07042 338966001180 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 338966001181 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 338966001182 Catalytic site [active] 338966001183 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 338966001184 catalytic residues [active] 338966001185 catalytic nucleophile [active] 338966001186 Recombinase; Region: Recombinase; pfam07508 338966001187 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966001188 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966001189 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966001190 catalytic residues [active] 338966001191 catalytic nucleophile [active] 338966001192 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966001193 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966001194 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966001195 Synaptic Site I dimer interface [polypeptide binding]; other site 338966001196 DNA binding site [nucleotide binding] 338966001197 Recombinase; Region: Recombinase; pfam07508 338966001198 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966001199 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 338966001200 catalytic residues [active] 338966001201 catalytic nucleophile [active] 338966001202 Recombinase; Region: Recombinase; pfam07508 338966001203 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966001204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001205 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 338966001206 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 338966001207 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 338966001208 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 338966001209 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 338966001210 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 338966001211 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 338966001212 FAD binding site [chemical binding]; other site 338966001213 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 338966001214 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 338966001215 active site 338966001216 Int/Topo IB signature motif; other site 338966001217 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 338966001218 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 338966001219 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 338966001220 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 338966001221 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966001222 aromatic acid decarboxylase; Validated; Region: PRK05920 338966001223 Flavoprotein; Region: Flavoprotein; cl08021 338966001224 UbiA prenyltransferase family; Region: UbiA; cl00337 338966001225 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 338966001226 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 338966001227 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 338966001228 glycogen synthase; Provisional; Region: glgA; PRK00654 338966001229 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 338966001230 ADP-binding pocket [chemical binding]; other site 338966001231 homodimer interface [polypeptide binding]; other site 338966001232 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 338966001233 active site 338966001234 intersubunit interactions; other site 338966001235 catalytic residue [active] 338966001236 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 338966001237 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 338966001238 catalytic center binding site [active] 338966001239 ATP binding site [chemical binding]; other site 338966001240 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966001241 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 338966001242 putative NAD(P) binding site [chemical binding]; other site 338966001243 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 338966001244 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 338966001245 dimer interface [polypeptide binding]; other site 338966001246 PYR/PP interface [polypeptide binding]; other site 338966001247 TPP binding site [chemical binding]; other site 338966001248 substrate binding site [chemical binding]; other site 338966001249 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001250 Domain of unknown function; Region: EKR; cl11037 338966001251 4Fe-4S binding domain; Region: Fer4; cl02805 338966001252 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 338966001253 TPP-binding site [chemical binding]; other site 338966001254 dimer interface [polypeptide binding]; other site 338966001255 recombination protein RecR; Reviewed; Region: recR; PRK00076 338966001256 RecR protein; Region: RecR; pfam02132 338966001257 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 338966001258 putative active site [active] 338966001259 putative metal-binding site [ion binding]; other site 338966001260 tetramer interface [polypeptide binding]; other site 338966001261 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 338966001262 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 338966001263 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 338966001264 Walker A motif; other site 338966001265 ATP binding site [chemical binding]; other site 338966001266 Walker B motif; other site 338966001267 arginine finger; other site 338966001268 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 338966001269 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 338966001270 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001271 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001272 MOSC domain; Region: MOSC; pfam03473 338966001273 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 338966001274 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 338966001275 FeS/SAM binding site; other site 338966001276 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 338966001277 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 338966001278 Walker A motif; other site 338966001279 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 338966001280 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 338966001281 4Fe-4S binding domain; Region: Fer4; cl02805 338966001282 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 338966001283 putative active site [active] 338966001284 putative ADP-ribose binding site [chemical binding]; other site 338966001285 Uncharacterized conserved protein [Function unknown]; Region: COG4748 338966001286 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 338966001287 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 338966001288 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 338966001289 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 338966001290 ABC transporter; Region: ABC_tran_2; pfam12848 338966001291 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 338966001292 peptide chain release factor 2; Region: prfB; TIGR00020 338966001293 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338966001294 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 338966001295 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 338966001296 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 338966001297 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 338966001298 putative dimer interface [polypeptide binding]; other site 338966001299 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966001300 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 338966001301 putative dimer interface [polypeptide binding]; other site 338966001302 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966001303 Zn2+ binding site [ion binding]; other site 338966001304 Mg2+ binding site [ion binding]; other site 338966001305 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 338966001306 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001307 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001308 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001309 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 338966001310 TPP-binding site [chemical binding]; other site 338966001311 PilZ domain; Region: PilZ; cl01260 338966001312 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966001313 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001314 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 338966001315 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 338966001316 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 338966001317 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 338966001318 dimer interface [polypeptide binding]; other site 338966001319 PYR/PP interface [polypeptide binding]; other site 338966001320 TPP binding site [chemical binding]; other site 338966001321 substrate binding site [chemical binding]; other site 338966001322 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 338966001323 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 338966001324 TPP-binding site [chemical binding]; other site 338966001325 putative dimer interface [polypeptide binding]; other site 338966001326 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 338966001327 FMN binding site [chemical binding]; other site 338966001328 dimer interface [polypeptide binding]; other site 338966001329 Membrane transport protein; Region: Mem_trans; cl09117 338966001330 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 338966001331 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966001332 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 338966001333 Protein export membrane protein; Region: SecD_SecF; cl14618 338966001334 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 338966001335 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 338966001336 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 338966001337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966001338 Helix-turn-helix domains; Region: HTH; cl00088 338966001339 NifU-like domain; Region: NifU; cl00484 338966001340 PemK-like protein; Region: PemK; cl00995 338966001341 hydrogenase 4 subunit B; Validated; Region: PRK06521 338966001342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966001343 NADH dehydrogenase; Region: NADHdh; cl00469 338966001344 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966001345 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00197 338966001346 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966001347 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966001348 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966001349 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 338966001350 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966001351 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 338966001352 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 338966001353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966001354 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966001355 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 338966001356 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 338966001357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001358 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966001359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001360 Walker A/P-loop; other site 338966001361 ATP binding site [chemical binding]; other site 338966001362 Q-loop/lid; other site 338966001363 ABC transporter signature motif; other site 338966001364 Walker B; other site 338966001365 D-loop; other site 338966001366 H-loop/switch region; other site 338966001367 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 338966001368 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 338966001369 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 338966001370 ribonuclease G; Provisional; Region: PRK11712 338966001371 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 338966001372 homodimer interface [polypeptide binding]; other site 338966001373 oligonucleotide binding site [chemical binding]; other site 338966001374 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 338966001375 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 338966001376 FeS/SAM binding site; other site 338966001377 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 338966001378 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 338966001379 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 338966001380 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966001381 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 338966001382 ATP binding site [chemical binding]; other site 338966001383 putative Mg++ binding site [ion binding]; other site 338966001384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001385 nucleotide binding region [chemical binding]; other site 338966001386 ATP-binding site [chemical binding]; other site 338966001387 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 338966001388 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 338966001389 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338966001390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966001391 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966001392 Virulence protein [General function prediction only]; Region: COG3943 338966001393 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966001394 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338966001395 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338966001396 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966001397 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966001398 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966001399 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 338966001400 Walker A motif; other site 338966001401 ATP binding site [chemical binding]; other site 338966001402 Walker B motif; other site 338966001403 arginine finger; other site 338966001404 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966001405 Baseplate J-like protein; Region: Baseplate_J; cl01294 338966001406 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 338966001407 PAAR motif; Region: PAAR_motif; cl15808 338966001408 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 338966001409 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 338966001410 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 338966001411 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 338966001412 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 338966001413 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 338966001414 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966001415 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966001416 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 338966001417 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966001418 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 338966001419 active site 338966001420 phosphorylation site [posttranslational modification] 338966001421 intermolecular recognition site; other site 338966001422 dimerization interface [polypeptide binding]; other site 338966001423 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 338966001424 DNA binding residues [nucleotide binding] 338966001425 dimerization interface [polypeptide binding]; other site 338966001426 PAS domain S-box; Region: sensory_box; TIGR00229 338966001427 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 338966001428 putative active site [active] 338966001429 heme pocket [chemical binding]; other site 338966001430 hypothetical protein; Provisional; Region: PRK13560 338966001431 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 338966001432 putative active site [active] 338966001433 heme pocket [chemical binding]; other site 338966001434 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 338966001435 dimer interface [polypeptide binding]; other site 338966001436 phosphorylation site [posttranslational modification] 338966001437 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 338966001438 ATP binding site [chemical binding]; other site 338966001439 Mg2+ binding site [ion binding]; other site 338966001440 G-X-G motif; other site 338966001441 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966001442 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 338966001443 active site 338966001444 phosphorylation site [posttranslational modification] 338966001445 intermolecular recognition site; other site 338966001446 dimerization interface [polypeptide binding]; other site 338966001447 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 338966001448 Walker A motif; other site 338966001449 ATP binding site [chemical binding]; other site 338966001450 Walker B motif; other site 338966001451 arginine finger; other site 338966001452 Helix-turn-helix domains; Region: HTH; cl00088 338966001453 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966001454 putative acyl-acceptor binding pocket; other site 338966001455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 338966001456 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 338966001457 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966001458 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 338966001459 ABC transporter ATPase component; Reviewed; Region: PRK11147 338966001460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001461 Walker A/P-loop; other site 338966001462 ATP binding site [chemical binding]; other site 338966001463 Q-loop/lid; other site 338966001464 ABC transporter signature motif; other site 338966001465 Walker B; other site 338966001466 D-loop; other site 338966001467 H-loop/switch region; other site 338966001468 ABC transporter; Region: ABC_tran_2; pfam12848 338966001469 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 338966001470 YtxH-like protein; Region: YtxH; cl02079 338966001471 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 338966001472 homodimer interface [polypeptide binding]; other site 338966001473 Walker A motif; other site 338966001474 ATP binding site [chemical binding]; other site 338966001475 hydroxycobalamin binding site [chemical binding]; other site 338966001476 Walker B motif; other site 338966001477 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 338966001478 B12 binding site [chemical binding]; other site 338966001479 cobalt ligand [ion binding]; other site 338966001480 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001481 ArgK protein; Region: ArgK; pfam03308 338966001482 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 338966001483 Walker A; other site 338966001484 G1 box; other site 338966001485 GTP/Mg2+ binding site [chemical binding]; other site 338966001486 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 338966001487 YtxH-like protein; Region: YtxH; cl02079 338966001488 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 338966001489 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966001490 catalytic residue [active] 338966001491 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; cl00107 338966001492 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 338966001493 putative peptidoglycan binding site; other site 338966001494 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 338966001495 binding surface 338966001496 TPR motif; other site 338966001497 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 338966001498 metal ion-dependent adhesion site (MIDAS); other site 338966001499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001500 ligand binding site [chemical binding]; other site 338966001501 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001502 ligand binding site [chemical binding]; other site 338966001503 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966001504 PAS domain S-box; Region: sensory_box; TIGR00229 338966001505 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 338966001506 putative active site [active] 338966001507 heme pocket [chemical binding]; other site 338966001508 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 338966001509 GAF domain; Region: GAF; cl15785 338966001510 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 338966001511 Walker A motif; other site 338966001512 ATP binding site [chemical binding]; other site 338966001513 Walker B motif; other site 338966001514 arginine finger; other site 338966001515 Helix-turn-helix domains; Region: HTH; cl00088 338966001516 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338966001517 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 338966001518 Paraquat-inducible protein A; Region: PqiA; pfam04403 338966001519 Paraquat-inducible protein A; Region: PqiA; pfam04403 338966001520 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 338966001521 mce related protein; Region: MCE; pfam02470 338966001522 mce related protein; Region: MCE; pfam02470 338966001523 mce related protein; Region: MCE; pfam02470 338966001524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 338966001525 Protein of unknown function (DUF330); Region: DUF330; cl01135 338966001526 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338966001527 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 338966001528 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 338966001529 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 338966001530 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966001531 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 338966001532 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 338966001533 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 338966001534 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966001535 Ion channel; Region: Ion_trans_2; cl11596 338966001536 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 338966001537 homodimer interface [polypeptide binding]; other site 338966001538 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 338966001539 active site pocket [active] 338966001540 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 338966001541 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 338966001542 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 338966001543 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 338966001544 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 338966001545 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 338966001546 GAF domain; Region: GAF; cl15785 338966001547 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 338966001548 dimer interface [polypeptide binding]; other site 338966001549 phosphorylation site [posttranslational modification] 338966001550 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 338966001551 ATP binding site [chemical binding]; other site 338966001552 Mg2+ binding site [ion binding]; other site 338966001553 G-X-G motif; other site 338966001554 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 338966001555 DNA repair protein RadA; Provisional; Region: PRK11823 338966001556 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 338966001557 Walker A motif/ATP binding site; other site 338966001558 ATP binding site [chemical binding]; other site 338966001559 Walker B motif; other site 338966001560 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 338966001561 HEAT repeats; Region: HEAT_2; pfam13646 338966001562 protein binding surface [polypeptide binding]; other site 338966001563 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 338966001564 HEAT repeats; Region: HEAT_2; pfam13646 338966001565 Transglycosylase; Region: Transgly; cl07896 338966001566 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 338966001567 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 338966001568 FeS/SAM binding site; other site 338966001569 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 338966001570 Heme NO binding; Region: HNOB; cl15268 338966001571 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 338966001572 PAS domain S-box; Region: sensory_box; TIGR00229 338966001573 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 338966001574 putative active site [active] 338966001575 heme pocket [chemical binding]; other site 338966001576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001577 metal binding site [ion binding]; metal-binding site 338966001578 active site 338966001579 I-site; other site 338966001580 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 338966001581 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 338966001582 ATP binding site [chemical binding]; other site 338966001583 Mg++ binding site [ion binding]; other site 338966001584 motif III; other site 338966001585 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 338966001586 nucleotide binding region [chemical binding]; other site 338966001587 ATP-binding site [chemical binding]; other site 338966001588 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001589 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 338966001590 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 338966001591 substrate binding site [chemical binding]; other site 338966001592 ATP binding site [chemical binding]; other site 338966001593 TPR repeat; Region: TPR_11; pfam13414 338966001594 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 338966001595 binding surface 338966001596 TPR motif; other site 338966001597 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 338966001598 binding surface 338966001599 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966001600 TPR motif; other site 338966001601 TPR repeat; Region: TPR_11; pfam13414 338966001602 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 338966001603 Response regulator receiver domain; Region: Response_reg; pfam00072 338966001604 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 338966001605 active site 338966001606 phosphorylation site [posttranslational modification] 338966001607 intermolecular recognition site; other site 338966001608 dimerization interface [polypeptide binding]; other site 338966001609 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 338966001610 Ligand Binding Site [chemical binding]; other site 338966001611 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 338966001612 active site 338966001613 phosphorylation site [posttranslational modification] 338966001614 intermolecular recognition site; other site 338966001615 dimerization interface [polypeptide binding]; other site 338966001616 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 338966001617 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 338966001618 ATP binding site [chemical binding]; other site 338966001619 Mg2+ binding site [ion binding]; other site 338966001620 G-X-G motif; other site 338966001621 Response regulator receiver domain; Region: Response_reg; pfam00072 338966001622 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 338966001623 active site 338966001624 phosphorylation site [posttranslational modification] 338966001625 intermolecular recognition site; other site 338966001626 dimerization interface [polypeptide binding]; other site 338966001627 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 338966001628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966001629 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 338966001630 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 338966001631 generic binding surface I; other site 338966001632 generic binding surface II; other site 338966001633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966001634 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966001635 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 338966001636 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001637 ligand binding site [chemical binding]; other site 338966001638 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 338966001639 dimer interface [polypeptide binding]; other site 338966001640 active site 338966001641 Schiff base residues; other site 338966001642 TraB family; Region: TraB; cl12050 338966001643 cell division protein FtsN; Provisional; Region: PRK12757 338966001644 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966001645 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 338966001646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001647 Walker A/P-loop; other site 338966001648 ATP binding site [chemical binding]; other site 338966001649 Q-loop/lid; other site 338966001650 ABC transporter signature motif; other site 338966001651 Walker B; other site 338966001652 D-loop; other site 338966001653 H-loop/switch region; other site 338966001654 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338966001655 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 338966001656 dimer interface [polypeptide binding]; other site 338966001657 ssDNA binding site [nucleotide binding]; other site 338966001658 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966001659 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966001660 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 338966001661 isocitrate dehydrogenase; Validated; Region: PRK07362 338966001662 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338966001663 endonuclease IV; Provisional; Region: PRK01060 338966001664 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; cd00019 338966001665 AP (apurinic/apyrimidinic) site pocket; other site 338966001666 DNA interaction; other site 338966001667 Metal-binding active site; metal-binding site 338966001668 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338966001669 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 338966001670 dimer interface [polypeptide binding]; other site 338966001671 putative functional site; other site 338966001672 putative MPT binding site; other site 338966001673 GAF domain; Region: GAF; cl15785 338966001674 GAF domain; Region: GAF_2; pfam13185 338966001675 GAF domain; Region: GAF; cl15785 338966001676 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966001677 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 338966001678 Walker A motif; other site 338966001679 ATP binding site [chemical binding]; other site 338966001680 Walker B motif; other site 338966001681 arginine finger; other site 338966001682 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 338966001683 Integrase core domain; Region: rve; cl01316 338966001684 Integrase core domain; Region: rve_3; cl15866 338966001685 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966001686 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 338966001687 Int/Topo IB signature motif; other site 338966001688 DNA binding site [nucleotide binding] 338966001689 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 338966001690 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966001691 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 338966001692 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966001693 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 338966001694 Rubredoxin; Region: Rubredoxin; pfam00301 338966001695 iron binding site [ion binding]; other site 338966001696 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966001697 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966001698 diiron binding motif [ion binding]; other site 338966001699 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 338966001700 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 338966001701 TPP-binding site [chemical binding]; other site 338966001702 putative dimer interface [polypeptide binding]; other site 338966001703 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: vorA; PRK08366 338966001704 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 338966001705 dimer interface [polypeptide binding]; other site 338966001706 PYR/PP interface [polypeptide binding]; other site 338966001707 TPP binding site [chemical binding]; other site 338966001708 substrate binding site [chemical binding]; other site 338966001709 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 338966001710 4Fe-4S binding domain; Region: Fer4; cl02805 338966001711 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001712 AMP-binding domain protein; Validated; Region: PRK08315 338966001713 AMP-binding enzyme; Region: AMP-binding; cl15778 338966001714 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966001715 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 338966001716 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 338966001717 non-specific DNA binding site [nucleotide binding]; other site 338966001718 salt bridge; other site 338966001719 sequence-specific DNA binding site [nucleotide binding]; other site 338966001720 Cupin domain; Region: Cupin_2; cl09118 338966001721 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 338966001722 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 338966001723 4Fe-4S binding domain; Region: Fer4; cl02805 338966001724 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966001725 4Fe-4S binding domain; Region: Fer4; cl02805 338966001726 2-isopropylmalate synthase; Validated; Region: PRK00915 338966001727 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 338966001728 active site 338966001729 catalytic residues [active] 338966001730 metal binding site [ion binding]; metal-binding site 338966001731 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 338966001732 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 338966001733 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 338966001734 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 338966001735 homodimer interface [polypeptide binding]; other site 338966001736 NADP binding site [chemical binding]; other site 338966001737 substrate binding site [chemical binding]; other site 338966001738 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 338966001739 active site 338966001740 tetramer interface; other site 338966001741 putative exosortase-affiliated protein, TIGR04073 family; Region: exo_TIGR04073 338966001742 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 338966001743 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 338966001744 dimer interface [polypeptide binding]; other site 338966001745 decamer (pentamer of dimers) interface [polypeptide binding]; other site 338966001746 catalytic triad [active] 338966001747 peroxidatic and resolving cysteines [active] 338966001748 Nitrogen regulatory protein P-II; Region: P-II; cl00412 338966001749 Nitrogen regulatory protein P-II; Region: P-II; smart00938 338966001750 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 338966001751 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 338966001752 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 338966001753 dimer interface [polypeptide binding]; other site 338966001754 phosphorylation site [posttranslational modification] 338966001755 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 338966001756 ATP binding site [chemical binding]; other site 338966001757 Mg2+ binding site [ion binding]; other site 338966001758 G-X-G motif; other site 338966001759 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 338966001760 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966001761 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 338966001762 putative NAD(P) binding site [chemical binding]; other site 338966001763 active site 338966001764 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 338966001765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001766 metal binding site [ion binding]; metal-binding site 338966001767 active site 338966001768 I-site; other site 338966001769 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 338966001770 Predicted transcriptional regulator [Transcription]; Region: COG2378 338966001771 Helix-turn-helix domains; Region: HTH; cl00088 338966001772 WYL domain; Region: WYL; cl14852 338966001773 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 338966001774 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 338966001775 motif II; other site 338966001776 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 338966001777 putative active site [active] 338966001778 dimerization interface [polypeptide binding]; other site 338966001779 putative tRNAtyr binding site [nucleotide binding]; other site 338966001780 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 338966001781 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 338966001782 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 338966001783 ATP binding site [chemical binding]; other site 338966001784 putative Mg++ binding site [ion binding]; other site 338966001785 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 338966001786 nucleotide binding region [chemical binding]; other site 338966001787 ATP-binding site [chemical binding]; other site 338966001788 TRCF domain; Region: TRCF; cl04088 338966001789 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 338966001790 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 338966001791 Substrate binding site; other site 338966001792 Mg++ binding site; other site 338966001793 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 338966001794 active site 338966001795 substrate binding site [chemical binding]; other site 338966001796 CoA binding site [chemical binding]; other site 338966001797 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 338966001798 active site 338966001799 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966001800 phosphorylation site [posttranslational modification] 338966001801 intermolecular recognition site; other site 338966001802 dimerization interface [polypeptide binding]; other site 338966001803 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 338966001804 putative active site [active] 338966001805 heme pocket [chemical binding]; other site 338966001806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001807 metal binding site [ion binding]; metal-binding site 338966001808 active site 338966001809 I-site; other site 338966001810 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 338966001811 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 338966001812 active site 338966001813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966001814 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 338966001815 active site 338966001816 phosphorylation site [posttranslational modification] 338966001817 intermolecular recognition site; other site 338966001818 dimerization interface [polypeptide binding]; other site 338966001819 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 338966001820 DNA binding site [nucleotide binding] 338966001821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966001822 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 338966001823 dimer interface [polypeptide binding]; other site 338966001824 phosphorylation site [posttranslational modification] 338966001825 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 338966001826 ATP binding site [chemical binding]; other site 338966001827 Mg2+ binding site [ion binding]; other site 338966001828 G-X-G motif; other site 338966001829 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 338966001830 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 338966001831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001833 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 338966001834 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 338966001835 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 338966001836 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966001837 metal binding triad; other site 338966001838 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966001839 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966001840 metal binding triad; other site 338966001841 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966001842 Protein of unknown function DUF116; Region: DUF116; cl00800 338966001843 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 338966001844 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 338966001845 putative active site [active] 338966001846 substrate binding site [chemical binding]; other site 338966001847 putative cosubstrate binding site; other site 338966001848 catalytic site [active] 338966001849 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 338966001850 substrate binding site [chemical binding]; other site 338966001851 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 338966001852 active site 338966001853 catalytic residues [active] 338966001854 metal binding site [ion binding]; metal-binding site 338966001855 HDOD domain; Region: HDOD; pfam08668 338966001856 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966001857 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 338966001858 TPR motif; other site 338966001859 binding surface 338966001860 TPR repeat; Region: TPR_11; pfam13414 338966001861 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 338966001862 binding surface 338966001863 TPR motif; other site 338966001864 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 338966001865 binding surface 338966001866 TPR motif; other site 338966001867 TPR repeat; Region: TPR_11; pfam13414 338966001868 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 338966001869 binding surface 338966001870 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966001871 TPR motif; other site 338966001872 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 338966001873 binding surface 338966001874 TPR motif; other site 338966001875 TPR repeat; Region: TPR_11; pfam13414 338966001876 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 338966001877 active site 338966001878 catalytic site [active] 338966001879 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 338966001880 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 338966001881 GDP-binding site [chemical binding]; other site 338966001882 ACT binding site; other site 338966001883 IMP binding site; other site 338966001884 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 338966001885 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 338966001886 dimer interface [polypeptide binding]; other site 338966001887 motif 1; other site 338966001888 active site 338966001889 motif 2; other site 338966001890 motif 3; other site 338966001891 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 338966001892 anticodon binding site; other site 338966001893 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 338966001894 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966001895 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966001896 dimer interface [polypeptide binding]; other site 338966001897 substrate binding site [chemical binding]; other site 338966001898 metal binding site [ion binding]; metal-binding site 338966001899 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 338966001900 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 338966001901 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 338966001902 non-specific DNA binding site [nucleotide binding]; other site 338966001903 salt bridge; other site 338966001904 sequence-specific DNA binding site [nucleotide binding]; other site 338966001905 Cupin domain; Region: Cupin_2; cl09118 338966001906 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966001907 Cysteine-rich domain; Region: CCG; pfam02754 338966001908 Cysteine-rich domain; Region: CCG; pfam02754 338966001909 Transposase domain (DUF772); Region: DUF772; pfam05598 338966001910 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966001911 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966001912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966001913 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 338966001914 DNA topoisomerase I; Validated; Region: PRK06599 338966001915 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 338966001916 active site 338966001917 interdomain interaction site; other site 338966001918 putative metal-binding site [ion binding]; other site 338966001919 nucleotide binding site [chemical binding]; other site 338966001920 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 338966001921 domain I; other site 338966001922 DNA binding groove [nucleotide binding] 338966001923 phosphate binding site [ion binding]; other site 338966001924 domain II; other site 338966001925 domain III; other site 338966001926 nucleotide binding site [chemical binding]; other site 338966001927 catalytic site [active] 338966001928 domain IV; other site 338966001929 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966001930 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 338966001931 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966001932 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966001933 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 338966001934 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 338966001935 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 338966001936 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; cl00107 338966001937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 338966001938 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966001939 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966001940 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338966001941 Peptidase family U32; Region: Peptidase_U32; cl03113 338966001942 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 338966001943 replicative DNA helicase; Region: DnaB; TIGR00665 338966001944 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 338966001945 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 338966001946 Walker A motif; other site 338966001947 ATP binding site [chemical binding]; other site 338966001948 Walker B motif; other site 338966001949 DNA binding loops [nucleotide binding] 338966001950 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966001951 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966001952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001953 Walker A motif; other site 338966001954 ATP binding site [chemical binding]; other site 338966001955 Walker B motif; other site 338966001956 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 338966001957 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 338966001958 Walker A motif; other site 338966001959 ATP binding site [chemical binding]; other site 338966001960 Walker B motif; other site 338966001961 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 338966001962 trimer interface [polypeptide binding]; other site 338966001963 dimer interface [polypeptide binding]; other site 338966001964 putative active site [active] 338966001965 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 338966001966 MPT binding site; other site 338966001967 trimer interface [polypeptide binding]; other site 338966001968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966001969 AAA domain; Region: AAA_21; pfam13304 338966001970 Walker A/P-loop; other site 338966001971 ATP binding site [chemical binding]; other site 338966001972 AAA domain; Region: AAA_21; pfam13304 338966001973 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 338966001974 MPT binding site; other site 338966001975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001976 metal binding site [ion binding]; metal-binding site 338966001977 active site 338966001978 I-site; other site 338966001979 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 338966001980 putative FMN binding site [chemical binding]; other site 338966001981 NADPH bind site [chemical binding]; other site 338966001982 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 338966001983 GIY-YIG motif/motif A; other site 338966001984 putative active site [active] 338966001985 putative metal binding site [ion binding]; other site 338966001986 YaeQ protein; Region: YaeQ; cl01913 338966001987 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 338966001988 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 338966001989 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 338966001990 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 338966001991 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 338966001992 TPP-binding site [chemical binding]; other site 338966001993 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 338966001994 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 338966001995 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001996 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 338966001997 dimer interface [polypeptide binding]; other site 338966001998 PYR/PP interface [polypeptide binding]; other site 338966001999 TPP binding site [chemical binding]; other site 338966002000 substrate binding site [chemical binding]; other site 338966002001 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 338966002002 Aspartase; Region: Aspartase; cd01357 338966002003 active sites [active] 338966002004 tetramer interface [polypeptide binding]; other site 338966002005 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966002006 ligand binding site [chemical binding]; other site 338966002007 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966002008 putative alcohol dehydrogenase; Provisional; Region: PRK09860 338966002009 dimer interface [polypeptide binding]; other site 338966002010 active site 338966002011 metal binding site [ion binding]; metal-binding site 338966002012 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 338966002013 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 338966002014 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 338966002015 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 338966002016 DNA-binding site [nucleotide binding]; DNA binding site 338966002017 RNA-binding motif; other site 338966002018 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 338966002019 VacJ like lipoprotein; Region: VacJ; cl01073 338966002020 mce related protein; Region: MCE; pfam02470 338966002021 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 338966002022 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 338966002023 Walker A/P-loop; other site 338966002024 ATP binding site [chemical binding]; other site 338966002025 Q-loop/lid; other site 338966002026 ABC transporter signature motif; other site 338966002027 Walker B; other site 338966002028 D-loop; other site 338966002029 H-loop/switch region; other site 338966002030 Permease; Region: Permease; cl00510 338966002031 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 338966002032 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 338966002033 ligand binding site; other site 338966002034 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966002035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966002036 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966002037 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 338966002038 RNA binding surface [nucleotide binding]; other site 338966002039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966002040 active site 338966002041 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 338966002042 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 338966002043 inhibitor-cofactor binding pocket; inhibition site 338966002044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966002045 catalytic residue [active] 338966002046 Predicted GTPase [General function prediction only]; Region: COG2403 338966002047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002048 Rhomboid family; Region: Rhomboid; cl11446 338966002049 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966002050 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 338966002051 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 338966002052 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 338966002053 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 338966002054 putative peptidoglycan binding site; other site 338966002055 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 338966002056 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 338966002057 Sporulation related domain; Region: SPOR; cl10051 338966002058 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 338966002059 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 338966002060 Bacterial SH3 domain; Region: SH3_3; cl02551 338966002061 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966002062 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966002063 Probable Catalytic site; other site 338966002064 metal-binding site 338966002065 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 338966002066 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 338966002067 active site 338966002068 HIGH motif; other site 338966002069 dimer interface [polypeptide binding]; other site 338966002070 KMSKS motif; other site 338966002071 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966002072 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 338966002073 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966002074 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 338966002075 GAF domain; Region: GAF; cl15785 338966002076 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 338966002077 Walker B motif; other site 338966002078 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966002079 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002080 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 338966002081 Magnesium ion binding site [ion binding]; other site 338966002082 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002083 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 338966002084 ParB-like nuclease domain; Region: ParBc; cl02129 338966002085 hydrogenase 4 subunit D; Validated; Region: PRK06525 338966002086 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002087 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 338966002088 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002089 tyrosine 3-monooxygenase, tetrameric; Region: Tyr_3_monoox; TIGR01269 338966002090 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002091 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 338966002092 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966002093 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966002094 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966002095 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966002096 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 338966002097 NADH dehydrogenase; Region: NADHdh; cl00469 338966002098 NADH-plastoquinone oxidoreductase subunit; Provisional; Region: PRK08348 338966002099 4Fe-4S binding domain; Region: Fer4; cl02805 338966002100 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 338966002101 nickel binding site [ion binding]; other site 338966002102 ATP synthase A chain; Region: ATP-synt_A; cl00413 338966002103 ATP synthase subunit C; Region: ATP-synt_C; cl00466 338966002104 Plant ATP synthase F0; Region: YMF19; cl07975 338966002105 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 338966002106 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 338966002107 Plant ATP synthase F0; Region: YMF19; cl07975 338966002108 Plant ATP synthase F0; Region: YMF19; cl07975 338966002109 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 338966002110 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 338966002111 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 338966002112 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 338966002113 beta subunit interaction interface [polypeptide binding]; other site 338966002114 Walker A motif; other site 338966002115 ATP binding site [chemical binding]; other site 338966002116 Walker B motif; other site 338966002117 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966002118 ATP synthase; Region: ATP-synt; cl00365 338966002119 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 338966002120 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 338966002121 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 338966002122 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 338966002123 alpha subunit interaction interface [polypeptide binding]; other site 338966002124 Walker A motif; other site 338966002125 ATP binding site [chemical binding]; other site 338966002126 Walker B motif; other site 338966002127 inhibitor binding site; inhibition site 338966002128 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966002129 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 338966002130 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 338966002131 Acetokinase family; Region: Acetate_kinase; cl01029 338966002132 acetate kinase; Region: ackA; TIGR00016 338966002133 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 338966002134 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 338966002135 FeS/SAM binding site; other site 338966002136 K+ potassium transporter; Region: K_trans; cl15781 338966002137 ydaO/yuaA element as predicted by Rfam (RF00379), score 54.64 338966002138 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 338966002139 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 338966002140 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 338966002141 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966002142 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 338966002143 FeS/SAM binding site; other site 338966002144 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 338966002145 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 338966002146 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 338966002147 putative active site [active] 338966002148 putative metal binding site [ion binding]; other site 338966002149 seryl-tRNA synthetase; Provisional; Region: PRK05431 338966002150 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 338966002151 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 338966002152 dimer interface [polypeptide binding]; other site 338966002153 active site 338966002154 motif 1; other site 338966002155 motif 2; other site 338966002156 motif 3; other site 338966002157 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 338966002158 hypothetical protein; Provisional; Region: PRK10396 338966002159 SEC-C motif; Region: SEC-C; pfam02810 338966002160 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 338966002161 RNA binding surface [nucleotide binding]; other site 338966002162 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 338966002163 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 338966002164 substrate binding site [chemical binding]; other site 338966002165 active site 338966002166 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 338966002167 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 338966002168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966002169 homodimer interface [polypeptide binding]; other site 338966002170 catalytic residue [active] 338966002171 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 338966002172 substrate binding site [chemical binding]; other site 338966002173 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 338966002174 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 338966002175 substrate binding site [chemical binding]; other site 338966002176 ligand binding site [chemical binding]; other site 338966002177 AIR carboxylase; Region: AIRC; cl00310 338966002178 Protein of unknown function DUF111; Region: DUF111; cl03398 338966002179 competence damage-inducible protein A; Provisional; Region: PRK00549 338966002180 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 338966002181 putative MPT binding site; other site 338966002182 Competence-damaged protein; Region: CinA; cl00666 338966002183 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966002184 NADH dehydrogenase subunit B; Provisional; Region: PRK14817 338966002185 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966002186 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966002187 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966002188 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 338966002189 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 338966002190 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 338966002191 putative dimer interface [polypeptide binding]; other site 338966002192 [2Fe-2S] cluster binding site [ion binding]; other site 338966002193 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 338966002194 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 338966002195 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 338966002196 catalytic loop [active] 338966002197 iron binding site [ion binding]; other site 338966002198 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 338966002199 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966002200 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; cd00368 338966002201 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 338966002202 NADH dehydrogenase; Region: NADHdh; cl00469 338966002203 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 338966002204 4Fe-4S binding domain; Region: Fer4; cl02805 338966002205 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 338966002206 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966002207 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966002208 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966002209 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002210 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966002211 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002212 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966002213 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338966002214 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966002215 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 338966002216 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 338966002217 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 338966002218 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 338966002219 PQ loop repeat; Region: PQ-loop; cl12056 338966002220 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 338966002221 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 338966002222 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 338966002223 binding surface 338966002224 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 338966002225 TPR motif; other site 338966002226 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 338966002227 binding surface 338966002228 TPR motif; other site 338966002229 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 338966002230 nucleotide binding site/active site [active] 338966002231 HIT family signature motif; other site 338966002232 catalytic residue [active] 338966002233 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 338966002234 HDOD domain; Region: HDOD; pfam08668 338966002235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966002236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002237 metal binding site [ion binding]; metal-binding site 338966002238 active site 338966002239 I-site; other site 338966002240 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 338966002241 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 338966002242 dimerization interface [polypeptide binding]; other site 338966002243 active site 338966002244 Helix-turn-helix domains; Region: HTH; cl00088 338966002245 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 338966002246 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 338966002247 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 338966002248 Type III pantothenate kinase; Region: Pan_kinase; cl09130 338966002249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002250 elongation factor G; Reviewed; Region: PRK12740 338966002251 G1 box; other site 338966002252 GTP/Mg2+ binding site [chemical binding]; other site 338966002253 G2 box; other site 338966002254 Switch I region; other site 338966002255 G3 box; other site 338966002256 Switch II region; other site 338966002257 G4 box; other site 338966002258 G5 box; other site 338966002259 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 338966002260 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 338966002261 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 338966002262 Sporulation related domain; Region: SPOR; cl10051 338966002263 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338966002264 G1 box; other site 338966002265 GTP/Mg2+ binding site [chemical binding]; other site 338966002266 G2 box; other site 338966002267 Switch I region; other site 338966002268 G3 box; other site 338966002269 Switch II region; other site 338966002270 G4 box; other site 338966002271 G5 box; other site 338966002272 Phospholipid methyltransferase; Region: PEMT; cl00763 338966002273 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966002274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002275 active site 338966002276 BON domain; Region: BON; cl02771 338966002277 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 338966002278 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 338966002279 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338966002280 minor groove reading motif; other site 338966002281 helix-hairpin-helix signature motif; other site 338966002282 substrate binding pocket [chemical binding]; other site 338966002283 active site 338966002284 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966002285 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 338966002286 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966002287 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 338966002288 elongation factor Tu; Reviewed; Region: PRK00049 338966002289 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338966002290 G1 box; other site 338966002291 GEF interaction site [polypeptide binding]; other site 338966002292 GTP/Mg2+ binding site [chemical binding]; other site 338966002293 Switch I region; other site 338966002294 G2 box; other site 338966002295 G3 box; other site 338966002296 Switch II region; other site 338966002297 G4 box; other site 338966002298 G5 box; other site 338966002299 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 338966002300 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 338966002301 Antibiotic Binding Site [chemical binding]; other site 338966002302 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 338966002303 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 338966002304 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 338966002305 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 338966002306 putative homodimer interface [polypeptide binding]; other site 338966002307 KOW motif; Region: KOW; cl00354 338966002308 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 338966002309 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 338966002310 23S rRNA interface [nucleotide binding]; other site 338966002311 L7/L12 interface [polypeptide binding]; other site 338966002312 putative thiostrepton binding site; other site 338966002313 L25 interface [polypeptide binding]; other site 338966002314 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 338966002315 mRNA/rRNA interface [nucleotide binding]; other site 338966002316 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 338966002317 23S rRNA interface [nucleotide binding]; other site 338966002318 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 338966002319 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 338966002320 L11 interface [polypeptide binding]; other site 338966002321 putative EF-Tu interaction site [polypeptide binding]; other site 338966002322 putative EF-G interaction site [polypeptide binding]; other site 338966002323 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 338966002324 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 338966002325 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 338966002326 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 338966002327 RPB11 interaction site [polypeptide binding]; other site 338966002328 RPB12 interaction site [polypeptide binding]; other site 338966002329 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 338966002330 RPB3 interaction site [polypeptide binding]; other site 338966002331 RPB1 interaction site [polypeptide binding]; other site 338966002332 RPB11 interaction site [polypeptide binding]; other site 338966002333 RPB10 interaction site [polypeptide binding]; other site 338966002334 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 338966002335 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 338966002336 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 338966002337 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 338966002338 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 338966002339 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 338966002340 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 338966002341 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 338966002342 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 338966002343 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 338966002344 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 338966002345 DNA binding site [nucleotide binding] 338966002346 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 338966002347 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 338966002348 S17 interaction site [polypeptide binding]; other site 338966002349 S8 interaction site; other site 338966002350 16S rRNA interaction site [nucleotide binding]; other site 338966002351 streptomycin interaction site [chemical binding]; other site 338966002352 23S rRNA interaction site [nucleotide binding]; other site 338966002353 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 338966002354 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 338966002355 elongation factor G; Reviewed; Region: PRK00007 338966002356 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 338966002357 G1 box; other site 338966002358 putative GEF interaction site [polypeptide binding]; other site 338966002359 GTP/Mg2+ binding site [chemical binding]; other site 338966002360 Switch I region; other site 338966002361 G2 box; other site 338966002362 G3 box; other site 338966002363 Switch II region; other site 338966002364 G4 box; other site 338966002365 G5 box; other site 338966002366 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 338966002367 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 338966002368 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 338966002369 elongation factor Tu; Reviewed; Region: PRK00049 338966002370 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338966002371 G1 box; other site 338966002372 GEF interaction site [polypeptide binding]; other site 338966002373 GTP/Mg2+ binding site [chemical binding]; other site 338966002374 Switch I region; other site 338966002375 G2 box; other site 338966002376 G3 box; other site 338966002377 Switch II region; other site 338966002378 G4 box; other site 338966002379 G5 box; other site 338966002380 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 338966002381 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 338966002382 Antibiotic Binding Site [chemical binding]; other site 338966002383 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 338966002384 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 338966002385 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 338966002386 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 338966002387 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 338966002388 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 338966002389 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 338966002390 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 338966002391 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 338966002392 protein-rRNA interface [nucleotide binding]; other site 338966002393 putative translocon binding site; other site 338966002394 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 338966002395 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 338966002396 G-X-X-G motif; other site 338966002397 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 338966002398 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 338966002399 23S rRNA interface [nucleotide binding]; other site 338966002400 5S rRNA interface [nucleotide binding]; other site 338966002401 putative antibiotic binding site [chemical binding]; other site 338966002402 L25 interface [polypeptide binding]; other site 338966002403 L27 interface [polypeptide binding]; other site 338966002404 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 338966002405 23S rRNA interface [nucleotide binding]; other site 338966002406 putative translocon interaction site; other site 338966002407 signal recognition particle (SRP54) interaction site; other site 338966002408 L23 interface [polypeptide binding]; other site 338966002409 trigger factor interaction site; other site 338966002410 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 338966002411 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 338966002412 KOW motif; Region: KOW; cl00354 338966002413 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 338966002414 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 338966002415 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 338966002416 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 338966002417 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 338966002418 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 338966002419 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 338966002420 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 338966002421 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 338966002422 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 338966002423 5S rRNA interface [nucleotide binding]; other site 338966002424 23S rRNA interface [nucleotide binding]; other site 338966002425 L5 interface [polypeptide binding]; other site 338966002426 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 338966002427 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 338966002428 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 338966002429 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 338966002430 23S rRNA binding site [nucleotide binding]; other site 338966002431 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 338966002432 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 338966002433 SecY translocase; Region: SecY; pfam00344 338966002434 adenylate kinase; Reviewed; Region: adk; PRK00279 338966002435 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 338966002436 AMP-binding site [chemical binding]; other site 338966002437 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 338966002438 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 338966002439 active site 338966002440 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 338966002441 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 338966002442 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 338966002443 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 338966002444 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 338966002445 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 338966002446 RNA binding surface [nucleotide binding]; other site 338966002447 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 338966002448 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 338966002449 alphaNTD homodimer interface [polypeptide binding]; other site 338966002450 alphaNTD - beta interaction site [polypeptide binding]; other site 338966002451 alphaNTD - beta' interaction site [polypeptide binding]; other site 338966002452 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 338966002453 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 338966002454 Protein of unknown function (DUF327); Region: DUF327; cl00753 338966002455 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338966002456 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 338966002457 dimerization interface [polypeptide binding]; other site 338966002458 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 338966002459 putative active site [active] 338966002460 heme pocket [chemical binding]; other site 338966002461 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 338966002462 dimer interface [polypeptide binding]; other site 338966002463 phosphorylation site [posttranslational modification] 338966002464 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 338966002465 ATP binding site [chemical binding]; other site 338966002466 Mg2+ binding site [ion binding]; other site 338966002467 G-X-G motif; other site 338966002468 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966002469 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 338966002470 active site 338966002471 phosphorylation site [posttranslational modification] 338966002472 intermolecular recognition site; other site 338966002473 dimerization interface [polypeptide binding]; other site 338966002474 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 338966002475 Walker A motif; other site 338966002476 ATP binding site [chemical binding]; other site 338966002477 Walker B motif; other site 338966002478 Helix-turn-helix domains; Region: HTH; cl00088 338966002479 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 338966002480 active site 338966002481 ribulose/triose binding site [chemical binding]; other site 338966002482 phosphate binding site [ion binding]; other site 338966002483 substrate (anthranilate) binding pocket [chemical binding]; other site 338966002484 product (indole) binding pocket [chemical binding]; other site 338966002485 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 338966002486 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 338966002487 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 338966002488 Response regulator receiver domain; Region: Response_reg; pfam00072 338966002489 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 338966002490 active site 338966002491 phosphorylation site [posttranslational modification] 338966002492 intermolecular recognition site; other site 338966002493 dimerization interface [polypeptide binding]; other site 338966002494 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966002495 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 338966002496 heterotetramer interface [polypeptide binding]; other site 338966002497 active site pocket [active] 338966002498 cleavage site 338966002499 PAS domain S-box; Region: sensory_box; TIGR00229 338966002500 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 338966002501 putative active site [active] 338966002502 heme pocket [chemical binding]; other site 338966002503 GAF domain; Region: GAF_2; pfam13185 338966002504 GAF domain; Region: GAF; cl15785 338966002505 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966002506 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 338966002507 putative active site [active] 338966002508 heme pocket [chemical binding]; other site 338966002509 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 338966002510 dimer interface [polypeptide binding]; other site 338966002511 phosphorylation site [posttranslational modification] 338966002512 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 338966002513 ATP binding site [chemical binding]; other site 338966002514 Mg2+ binding site [ion binding]; other site 338966002515 G-X-G motif; other site 338966002516 Response regulator receiver domain; Region: Response_reg; pfam00072 338966002517 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 338966002518 active site 338966002519 phosphorylation site [posttranslational modification] 338966002520 intermolecular recognition site; other site 338966002521 dimerization interface [polypeptide binding]; other site 338966002522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966002523 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 338966002524 ATP binding site [chemical binding]; other site 338966002525 Mg2+ binding site [ion binding]; other site 338966002526 G-X-G motif; other site 338966002527 Dodecin; Region: Dodecin; cl01328 338966002528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966002529 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 338966002530 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966002531 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 338966002532 dimerization interface [polypeptide binding]; other site 338966002533 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 338966002534 PAS domain; Region: PAS_9; pfam13426 338966002535 putative active site [active] 338966002536 heme pocket [chemical binding]; other site 338966002537 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002538 metal binding site [ion binding]; metal-binding site 338966002539 active site 338966002540 I-site; other site 338966002541 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 338966002542 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966002543 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 338966002544 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966002545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966002546 dimer interface [polypeptide binding]; other site 338966002547 putative CheW interface [polypeptide binding]; other site 338966002548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966002549 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 338966002550 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966002551 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 338966002552 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 338966002553 active site 338966002554 dimer interface [polypeptide binding]; other site 338966002555 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 338966002556 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 338966002557 active site 338966002558 FMN binding site [chemical binding]; other site 338966002559 substrate binding site [chemical binding]; other site 338966002560 3Fe-4S cluster binding site [ion binding]; other site 338966002561 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 338966002562 domain_subunit interface; other site 338966002563 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 338966002564 putative active site [active] 338966002565 Ap4A binding site [chemical binding]; other site 338966002566 nudix motif; other site 338966002567 putative metal binding site [ion binding]; other site 338966002568 Cupin domain; Region: Cupin_2; cl09118 338966002569 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 338966002570 Domain of unknown function DUF87; Region: DUF87; pfam01935 338966002571 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 338966002572 putative amphipathic alpha helix; other site 338966002573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966002574 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 338966002575 L-serine binding site [chemical binding]; other site 338966002576 ACT domain interface; other site 338966002577 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 338966002578 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966002579 catalytic residue [active] 338966002580 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 338966002581 N-carbamolyputrescine amidase; Region: PLN02747 338966002582 putative active site; other site 338966002583 catalytic triad [active] 338966002584 putative dimer interface [polypeptide binding]; other site 338966002585 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 338966002586 agmatine deiminase; Region: agmatine_aguA; TIGR03380 338966002587 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 338966002588 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 338966002589 PAS domain S-box; Region: sensory_box; TIGR00229 338966002590 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 338966002591 putative active site [active] 338966002592 heme pocket [chemical binding]; other site 338966002593 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 338966002594 dimer interface [polypeptide binding]; other site 338966002595 phosphorylation site [posttranslational modification] 338966002596 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 338966002597 ATP binding site [chemical binding]; other site 338966002598 Mg2+ binding site [ion binding]; other site 338966002599 G-X-G motif; other site 338966002600 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 338966002601 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966002602 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 338966002603 FeS/SAM binding site; other site 338966002604 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966002605 HDOD domain; Region: HDOD; pfam08668 338966002606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966002607 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 338966002608 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 338966002609 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966002610 active site 338966002611 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 338966002612 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 338966002613 5S rRNA interface [nucleotide binding]; other site 338966002614 CTC domain interface [polypeptide binding]; other site 338966002615 L16 interface [polypeptide binding]; other site 338966002616 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 338966002617 putative active site [active] 338966002618 catalytic residue [active] 338966002619 GTP-binding protein YchF; Reviewed; Region: PRK09601 338966002620 YchF GTPase; Region: YchF; cd01900 338966002621 G1 box; other site 338966002622 GTP/Mg2+ binding site [chemical binding]; other site 338966002623 Switch I region; other site 338966002624 G2 box; other site 338966002625 Switch II region; other site 338966002626 G3 box; other site 338966002627 G4 box; other site 338966002628 G5 box; other site 338966002629 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 338966002630 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 338966002631 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 338966002632 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 338966002633 serine O-acetyltransferase; Region: cysE; TIGR01172 338966002634 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 338966002635 trimer interface [polypeptide binding]; other site 338966002636 active site 338966002637 substrate binding site [chemical binding]; other site 338966002638 CoA binding site [chemical binding]; other site 338966002639 fumarate hydratase; Provisional; Region: PRK15389 338966002640 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 338966002641 Fumarase C-terminus; Region: Fumerase_C; cl00795 338966002642 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 338966002643 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 338966002644 RNA binding site [nucleotide binding]; other site 338966002645 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 338966002646 RNA binding site [nucleotide binding]; other site 338966002647 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 338966002648 RNA binding site [nucleotide binding]; other site 338966002649 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 338966002650 RNA binding site [nucleotide binding]; other site 338966002651 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 338966002652 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 338966002653 Walker A motif; other site 338966002654 ATP binding site [chemical binding]; other site 338966002655 Walker B motif; other site 338966002656 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 338966002657 DNA-binding site [nucleotide binding]; DNA binding site 338966002658 RNA-binding motif; other site 338966002659 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 338966002660 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc2; cd04597 338966002661 DRTGG domain; Region: DRTGG; cl12147 338966002662 DHH family; Region: DHH; pfam01368 338966002663 DHHA2 domain; Region: DHHA2; pfam02833 338966002664 helicase 45; Provisional; Region: PTZ00424 338966002665 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 338966002666 ATP binding site [chemical binding]; other site 338966002667 Mg++ binding site [ion binding]; other site 338966002668 motif III; other site 338966002669 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 338966002670 nucleotide binding region [chemical binding]; other site 338966002671 ATP-binding site [chemical binding]; other site 338966002672 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 338966002673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002674 ATP binding site [chemical binding]; other site 338966002675 putative Mg++ binding site [ion binding]; other site 338966002676 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 338966002677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002678 nucleotide binding region [chemical binding]; other site 338966002679 ATP-binding site [chemical binding]; other site 338966002680 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 338966002681 putative catalytic cysteine [active] 338966002682 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 338966002683 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 338966002684 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 338966002685 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 338966002686 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 338966002687 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 338966002688 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 338966002689 Domain of unknown function DUF21; Region: DUF21; pfam01595 338966002690 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 338966002691 Transporter associated domain; Region: CorC_HlyC; cl08393 338966002692 AsmA family; Region: AsmA; pfam05170 338966002693 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966002694 TIGR02099 family protein; Region: TIGR02099 338966002695 AsmA-like C-terminal region; Region: AsmA_2; cl15864 338966002696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966002697 Helix-turn-helix domains; Region: HTH; cl00088 338966002698 WHG domain; Region: WHG; pfam13305 338966002699 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 338966002700 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 338966002701 Active site cavity [active] 338966002702 catalytic acid [active] 338966002703 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966002704 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966002705 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 338966002706 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 338966002707 multidrug efflux protein; Reviewed; Region: PRK09579 338966002708 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 338966002709 putative ADP-binding pocket [chemical binding]; other site 338966002710 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 338966002711 metal binding site 2 [ion binding]; metal-binding site 338966002712 putative DNA binding helix; other site 338966002713 metal binding site 1 [ion binding]; metal-binding site 338966002714 dimer interface [polypeptide binding]; other site 338966002715 structural Zn2+ binding site [ion binding]; other site 338966002716 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966002717 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966002718 G1 box; other site 338966002719 GTP/Mg2+ binding site [chemical binding]; other site 338966002720 Switch I region; other site 338966002721 G2 box; other site 338966002722 G3 box; other site 338966002723 Switch II region; other site 338966002724 G4 box; other site 338966002725 G5 box; other site 338966002726 Nucleoside recognition; Region: Gate; cl00486 338966002727 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966002728 Nucleoside recognition; Region: Gate; cl00486 338966002729 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 338966002730 FeoA domain; Region: FeoA; cl00838 338966002731 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 338966002732 Sulfatase; Region: Sulfatase; cl10460 338966002733 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338966002734 4Fe-4S binding domain; Region: Fer4; cl02805 338966002735 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 338966002736 putative FMN binding site [chemical binding]; other site 338966002737 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 338966002738 active site 338966002739 FMN binding site [chemical binding]; other site 338966002740 substrate binding site [chemical binding]; other site 338966002741 putative catalytic residue [active] 338966002742 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966002743 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 338966002744 FeS/SAM binding site; other site 338966002745 Integral membrane protein TerC family; Region: TerC; cl10468 338966002746 Predicted membrane protein [Function unknown]; Region: COG2119 338966002747 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338966002748 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338966002749 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 338966002750 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 338966002751 putative cation:proton antiport protein; Provisional; Region: PRK10669 338966002752 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 338966002753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966002754 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 338966002755 Tim44-like domain; Region: Tim44; cl09208 338966002756 Integral membrane protein TerC family; Region: TerC; cl10468 338966002757 yybP-ykoY element as predicted by Rfam (RF00080), score 49.64 338966002758 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 338966002759 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 338966002760 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966002761 FeoA domain; Region: FeoA; cl00838 338966002762 FeoA domain; Region: FeoA; cl00838 338966002763 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966002764 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966002765 G1 box; other site 338966002766 GTP/Mg2+ binding site [chemical binding]; other site 338966002767 Switch I region; other site 338966002768 G2 box; other site 338966002769 G3 box; other site 338966002770 Switch II region; other site 338966002771 G4 box; other site 338966002772 G5 box; other site 338966002773 Nucleoside recognition; Region: Gate; cl00486 338966002774 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966002775 Nucleoside recognition; Region: Gate; cl00486 338966002776 FeoA domain; Region: FeoA; cl00838 338966002777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002778 metal binding site [ion binding]; metal-binding site 338966002779 active site 338966002780 I-site; other site 338966002781 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966002782 Zn2+ binding site [ion binding]; other site 338966002783 Mg2+ binding site [ion binding]; other site 338966002784 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966002785 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 338966002786 S-adenosylmethionine binding site [chemical binding]; other site 338966002787 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 338966002788 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 338966002789 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 338966002790 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966002791 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 338966002792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338966002793 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_5; cd06153 338966002794 homotrimer interaction site [polypeptide binding]; other site 338966002795 putative active site [active] 338966002796 Imelysin; Region: Peptidase_M75; cl09159 338966002797 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966002798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002799 Walker A motif; other site 338966002800 ATP binding site [chemical binding]; other site 338966002801 Walker B motif; other site 338966002802 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966002803 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 338966002804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002805 Walker A motif; other site 338966002806 ATP binding site [chemical binding]; other site 338966002807 Walker B motif; other site 338966002808 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966002809 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966002810 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966002811 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 338966002812 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966002813 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 338966002814 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966002815 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 338966002816 Walker A motif; other site 338966002817 ATP binding site [chemical binding]; other site 338966002818 Walker B motif; other site 338966002819 arginine finger; other site 338966002820 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338966002821 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 338966002822 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 338966002823 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966002824 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 338966002825 Iron permease FTR1 family; Region: FTR1; cl00475 338966002826 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966002827 Mysoin-binding motif of peroxisomes; Region: Vezatin; pfam12632 338966002828 Imelysin; Region: Peptidase_M75; cl09159 338966002829 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966002830 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 338966002831 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966002832 catalytic residue [active] 338966002833 NeuB family; Region: NeuB; cl00496 338966002834 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966002835 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 338966002836 ZIP Zinc transporter; Region: Zip; pfam02535 338966002837 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 338966002838 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 338966002839 DNA binding residues [nucleotide binding] 338966002840 dimer interface [polypeptide binding]; other site 338966002841 putative metal binding site [ion binding]; other site 338966002842 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966002843 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966002844 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966002845 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 338966002846 CrcB-like protein; Region: CRCB; cl09114 338966002847 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 338966002848 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 338966002849 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 338966002850 putative Cl- selectivity filter; other site 338966002851 putative pore gating glutamate residue; other site 338966002852 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966002853 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 338966002854 FeS/SAM binding site; other site 338966002855 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966002856 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 338966002857 DNA topoisomerase I; Validated; Region: PRK07219 338966002858 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 338966002859 Membrane transport protein; Region: Mem_trans; cl09117 338966002860 Low molecular weight phosphatase family; Region: LMWPc; cd00115 338966002861 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 338966002862 active site 338966002863 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 338966002864 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 338966002865 putative substrate translocation pore; other site 338966002866 ATP synthase; Region: ATP-synt; cl00365 338966002867 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 338966002868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002869 Walker A motif; other site 338966002870 ATP binding site [chemical binding]; other site 338966002871 Walker B motif; other site 338966002872 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 338966002873 Plant ATP synthase F0; Region: YMF19; cl07975 338966002874 ATP synthase subunit C; Region: ATP-synt_C; cl00466 338966002875 ATP synthase A chain; Region: ATP-synt_A; cl00413 338966002876 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 338966002877 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 338966002878 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 338966002879 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 338966002880 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 338966002881 alpha subunit interaction interface [polypeptide binding]; other site 338966002882 Walker A motif; other site 338966002883 ATP binding site [chemical binding]; other site 338966002884 Walker B motif; other site 338966002885 inhibitor binding site; inhibition site 338966002886 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966002887 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966002888 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 338966002889 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 338966002890 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 338966002891 catalytic residues [active] 338966002892 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966002893 Predicted permease; Region: DUF318; pfam03773 338966002894 Predicted permeases [General function prediction only]; Region: COG0701 338966002895 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 338966002896 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338966002897 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 338966002898 putative substrate translocation pore; other site 338966002899 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966002900 Helix-turn-helix domains; Region: HTH; cl00088 338966002901 Transposase domain (DUF772); Region: DUF772; pfam05598 338966002902 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966002903 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966002904 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966002905 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 338966002906 dimerization interface [polypeptide binding]; other site 338966002907 putative DNA binding site [nucleotide binding]; other site 338966002908 putative Zn2+ binding site [ion binding]; other site 338966002909 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966002910 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 338966002911 S-adenosylmethionine binding site [chemical binding]; other site 338966002912 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 338966002913 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 338966002914 XdhC Rossmann domain; Region: XdhC_C; pfam13478 338966002915 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 338966002916 nudix motif; other site 338966002917 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338966002918 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338966002919 Cation efflux family; Region: Cation_efflux; cl00316 338966002920 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 338966002921 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 338966002922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966002923 homodimer interface [polypeptide binding]; other site 338966002924 catalytic residue [active] 338966002925 CobD/Cbib protein; Region: CobD_Cbib; cl00561 338966002926 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966002927 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966002928 cobyric acid synthase; Provisional; Region: PRK00784 338966002929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002931 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 338966002932 catalytic triad [active] 338966002933 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 338966002934 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966002935 catalytic residue [active] 338966002936 Nif-specific regulatory protein; Region: nifA; TIGR01817 338966002937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966002938 Helix-turn-helix domains; Region: HTH; cl00088 338966002939 Transposase domain (DUF772); Region: DUF772; pfam05598 338966002940 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966002941 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966002942 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 338966002943 Response regulator receiver domain; Region: Response_reg; pfam00072 338966002944 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 338966002945 Walker A motif; other site 338966002946 ATP binding site [chemical binding]; other site 338966002947 Walker B motif; other site 338966002948 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338966002949 putative CheA interaction surface; other site 338966002950 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338966002951 putative binding surface; other site 338966002952 active site 338966002953 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966002954 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 338966002955 ATP binding site [chemical binding]; other site 338966002956 Mg2+ binding site [ion binding]; other site 338966002957 G-X-G motif; other site 338966002958 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 338966002959 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966002960 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 338966002961 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966002962 HDOD domain; Region: HDOD; pfam08668 338966002963 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966002964 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338966002965 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 338966002966 active site 338966002967 phosphorylation site [posttranslational modification] 338966002968 intermolecular recognition site; other site 338966002969 dimerization interface [polypeptide binding]; other site 338966002970 CheB methylesterase; Region: CheB_methylest; pfam01339 338966002971 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 338966002972 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 338966002973 G1 box; other site 338966002974 putative GEF interaction site [polypeptide binding]; other site 338966002975 GTP/Mg2+ binding site [chemical binding]; other site 338966002976 Switch I region; other site 338966002977 G2 box; other site 338966002978 G3 box; other site 338966002979 Switch II region; other site 338966002980 G4 box; other site 338966002981 G5 box; other site 338966002982 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 338966002983 DoxX; Region: DoxX; cl00976 338966002984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002985 metal binding site [ion binding]; metal-binding site 338966002986 active site 338966002987 I-site; other site 338966002988 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966002989 Bacterial transcriptional regulator; Region: IclR; pfam01614 338966002990 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 338966002991 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 338966002992 Walker A motif; other site 338966002993 ATP binding site [chemical binding]; other site 338966002994 Walker B motif; other site 338966002995 arginine finger; other site 338966002996 Helix-turn-helix domains; Region: HTH; cl00088 338966002997 competence damage-inducible protein A; Provisional; Region: PRK01215 338966002998 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 338966002999 putative MPT binding site; other site 338966003000 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966003001 putative alcohol dehydrogenase; Provisional; Region: PRK09860 338966003002 dimer interface [polypeptide binding]; other site 338966003003 active site 338966003004 metal binding site [ion binding]; metal-binding site 338966003005 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966003006 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 338966003007 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966003008 Ubiquitin-like proteins; Region: UBQ; cl00155 338966003009 charged pocket; other site 338966003010 hydrophobic patch; other site 338966003011 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 338966003012 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 338966003013 ATP binding site [chemical binding]; other site 338966003014 substrate interface [chemical binding]; other site 338966003015 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 338966003016 dimer interface [polypeptide binding]; other site 338966003017 conserved gate region; other site 338966003018 putative PBP binding loops; other site 338966003019 ABC-ATPase subunit interface; other site 338966003020 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338966003021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966003022 Walker A/P-loop; other site 338966003023 ATP binding site [chemical binding]; other site 338966003024 Q-loop/lid; other site 338966003025 ABC transporter signature motif; other site 338966003026 Walker B; other site 338966003027 D-loop; other site 338966003028 H-loop/switch region; other site 338966003029 TOBE domain; Region: TOBE_2; cl01440 338966003030 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 338966003031 Transposase domain (DUF772); Region: DUF772; pfam05598 338966003032 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003033 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003034 Short C-terminal domain; Region: SHOCT; cl01373 338966003035 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 338966003036 putative catalytic site [active] 338966003037 putative metal binding site [ion binding]; other site 338966003038 putative phosphate binding site [ion binding]; other site 338966003039 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 338966003040 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 338966003041 active site 338966003042 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966003043 phosphorylation site [posttranslational modification] 338966003044 intermolecular recognition site; other site 338966003045 dimerization interface [polypeptide binding]; other site 338966003046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966003047 metal binding site [ion binding]; metal-binding site 338966003048 active site 338966003049 I-site; other site 338966003050 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 338966003051 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 338966003052 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 338966003053 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 338966003054 dimer interface [polypeptide binding]; other site 338966003055 phosphorylation site [posttranslational modification] 338966003056 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 338966003057 ATP binding site [chemical binding]; other site 338966003058 Mg2+ binding site [ion binding]; other site 338966003059 G-X-G motif; other site 338966003060 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003061 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 338966003062 active site 338966003063 phosphorylation site [posttranslational modification] 338966003064 intermolecular recognition site; other site 338966003065 dimerization interface [polypeptide binding]; other site 338966003066 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 338966003067 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003068 active site 338966003069 phosphorylation site [posttranslational modification] 338966003070 intermolecular recognition site; other site 338966003071 dimerization interface [polypeptide binding]; other site 338966003072 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 338966003073 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 338966003074 PAS domain; Region: PAS_9; pfam13426 338966003075 putative active site [active] 338966003076 heme pocket [chemical binding]; other site 338966003077 PAS domain; Region: PAS_9; pfam13426 338966003078 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 338966003079 putative active site [active] 338966003080 heme pocket [chemical binding]; other site 338966003081 PAS domain S-box; Region: sensory_box; TIGR00229 338966003082 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 338966003083 putative active site [active] 338966003084 heme pocket [chemical binding]; other site 338966003085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966003086 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 338966003087 dimer interface [polypeptide binding]; other site 338966003088 phosphorylation site [posttranslational modification] 338966003089 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 338966003090 ATP binding site [chemical binding]; other site 338966003091 Mg2+ binding site [ion binding]; other site 338966003092 G-X-G motif; other site 338966003093 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003094 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 338966003095 active site 338966003096 phosphorylation site [posttranslational modification] 338966003097 intermolecular recognition site; other site 338966003098 dimerization interface [polypeptide binding]; other site 338966003099 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338966003100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003101 NAD(P) binding site [chemical binding]; other site 338966003102 active site 338966003103 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 338966003104 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 338966003105 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 338966003106 dimer interface [polypeptide binding]; other site 338966003107 active site 338966003108 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003109 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966003110 putative acyl-acceptor binding pocket; other site 338966003111 AMP-binding enzyme; Region: AMP-binding; cl15778 338966003112 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338966003113 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 338966003114 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 338966003115 FeS/SAM binding site; other site 338966003116 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966003117 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 338966003118 active site 2 [active] 338966003119 active site 1 [active] 338966003120 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 338966003121 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 338966003122 Predicted exporter [General function prediction only]; Region: COG4258 338966003123 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 338966003124 active site 2 [active] 338966003125 active site 1 [active] 338966003126 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 338966003127 active site 338966003128 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 338966003129 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 338966003130 active site 338966003131 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966003132 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 338966003133 B12 binding site [chemical binding]; other site 338966003134 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 338966003135 B12 binding site [chemical binding]; other site 338966003136 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966003137 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 338966003138 FeS/SAM binding site; other site 338966003139 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 338966003140 Ligand binding site; other site 338966003141 Putative Catalytic site; other site 338966003142 DXD motif; other site 338966003143 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 338966003144 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338966003145 putative acyl-acceptor binding pocket; other site 338966003146 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003147 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 338966003148 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966003149 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 338966003150 dimer interface [polypeptide binding]; other site 338966003151 active site 338966003152 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 338966003153 active site 338966003154 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003155 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 338966003156 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 338966003157 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966003158 catalytic residue [active] 338966003159 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 338966003160 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 338966003161 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 338966003162 structural tetrad; other site 338966003163 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; cl01770 338966003164 Integrase core domain; Region: rve; cl01316 338966003165 Integrase core domain; Region: rve_3; cl15866 338966003166 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966003167 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 338966003168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003169 active site 338966003170 5'-3' exonuclease; Region: 53EXOc; smart00475 338966003171 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338966003172 active site 338966003173 metal binding site 1 [ion binding]; metal-binding site 338966003174 putative 5' ssDNA interaction site; other site 338966003175 metal binding site 3; metal-binding site 338966003176 metal binding site 2 [ion binding]; metal-binding site 338966003177 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338966003178 putative DNA binding site [nucleotide binding]; other site 338966003179 putative metal binding site [ion binding]; other site 338966003180 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 338966003181 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966003182 active site 338966003183 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 338966003184 YceI-like domain; Region: YceI; cl01001 338966003185 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 338966003186 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 338966003187 aspartate aminotransferase; Provisional; Region: PRK05764 338966003188 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 338966003189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003190 homodimer interface [polypeptide binding]; other site 338966003191 catalytic residue [active] 338966003192 ribosome maturation protein RimP; Reviewed; Region: PRK00092 338966003193 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 338966003194 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 338966003195 Sm1 motif; other site 338966003196 predicted subunit interaction site [polypeptide binding]; other site 338966003197 RNA binding pocket [nucleotide binding]; other site 338966003198 Sm2 motif; other site 338966003199 NusA N-terminal domain; Region: NusA_N; pfam08529 338966003200 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 338966003201 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 338966003202 RNA binding site [nucleotide binding]; other site 338966003203 homodimer interface [polypeptide binding]; other site 338966003204 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 338966003205 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 338966003206 G-X-X-G motif; other site 338966003207 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; cd00279 338966003208 putative RNA binding cleft [nucleotide binding]; other site 338966003209 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 338966003210 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338966003211 translation initiation factor IF-2; Region: IF-2; TIGR00487 338966003212 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338966003213 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 338966003214 G1 box; other site 338966003215 putative GEF interaction site [polypeptide binding]; other site 338966003216 GTP/Mg2+ binding site [chemical binding]; other site 338966003217 Switch I region; other site 338966003218 G2 box; other site 338966003219 G3 box; other site 338966003220 Switch II region; other site 338966003221 G4 box; other site 338966003222 G5 box; other site 338966003223 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 338966003224 Translation-initiation factor 2; Region: IF-2; pfam11987 338966003225 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 338966003226 Ribosome-binding factor A; Region: RBFA; cl00542 338966003227 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 338966003228 DHH family; Region: DHH; pfam01368 338966003229 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 338966003230 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 338966003231 RNA binding site [nucleotide binding]; other site 338966003232 active site 338966003233 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 338966003234 16S/18S rRNA binding site [nucleotide binding]; other site 338966003235 S13e-L30e interaction site [polypeptide binding]; other site 338966003236 25S rRNA binding site [nucleotide binding]; other site 338966003237 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 338966003238 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 338966003239 RNase E interface [polypeptide binding]; other site 338966003240 trimer interface [polypeptide binding]; other site 338966003241 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 338966003242 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 338966003243 RNase E interface [polypeptide binding]; other site 338966003244 trimer interface [polypeptide binding]; other site 338966003245 active site 338966003246 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 338966003247 putative nucleic acid binding region [nucleotide binding]; other site 338966003248 G-X-X-G motif; other site 338966003249 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 338966003250 RNA binding site [nucleotide binding]; other site 338966003251 domain interface; other site 338966003252 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 338966003253 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 338966003254 putative active site [active] 338966003255 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 338966003256 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 338966003257 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966003258 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 338966003259 OstA-like protein; Region: OstA; cl00844 338966003260 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 338966003261 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 338966003262 Walker A/P-loop; other site 338966003263 ATP binding site [chemical binding]; other site 338966003264 Q-loop/lid; other site 338966003265 ABC transporter signature motif; other site 338966003266 Walker B; other site 338966003267 D-loop; other site 338966003268 H-loop/switch region; other site 338966003269 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 338966003270 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 338966003271 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 338966003272 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 338966003273 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 338966003274 30S subunit binding site; other site 338966003275 HPr kinase/phosphorylase; Provisional; Region: PRK05428 338966003276 DRTGG domain; Region: DRTGG; cl12147 338966003277 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 338966003278 Hpr binding site; other site 338966003279 active site 338966003280 homohexamer subunit interaction site [polypeptide binding]; other site 338966003281 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 338966003282 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 338966003283 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 338966003284 active pocket/dimerization site; other site 338966003285 active site 338966003286 phosphorylation site [posttranslational modification] 338966003287 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 338966003288 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 338966003289 dimerization domain swap beta strand [polypeptide binding]; other site 338966003290 regulatory protein interface [polypeptide binding]; other site 338966003291 active site 338966003292 regulatory phosphorylation site [posttranslational modification]; other site 338966003293 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 338966003294 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 338966003295 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 338966003296 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 338966003297 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 338966003298 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 338966003299 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 338966003300 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966003301 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 338966003302 active site 338966003303 phosphorylation site [posttranslational modification] 338966003304 intermolecular recognition site; other site 338966003305 dimerization interface [polypeptide binding]; other site 338966003306 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 338966003307 Walker A motif; other site 338966003308 ATP binding site [chemical binding]; other site 338966003309 Walker B motif; other site 338966003310 arginine finger; other site 338966003311 Helix-turn-helix domains; Region: HTH; cl00088 338966003312 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 338966003313 dimerization domain [polypeptide binding]; other site 338966003314 dimer interface [polypeptide binding]; other site 338966003315 catalytic residues [active] 338966003316 Bacterial Ig-like domain; Region: Big_5; cl01012 338966003317 Bacterial Ig-like domain; Region: Big_5; cl01012 338966003318 Bacterial Ig-like domain; Region: Big_5; cl01012 338966003319 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 338966003320 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 338966003321 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 338966003322 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 338966003323 catalytic residues [active] 338966003324 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 338966003325 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338966003326 Competence protein A; Region: Competence_A; pfam11104 338966003327 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 338966003328 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 338966003329 Pilus assembly protein, PilO; Region: PilO; cl01234 338966003330 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 338966003331 Pilus assembly protein, PilP; Region: PilP; pfam04351 338966003332 AMIN domain; Region: AMIN; pfam11741 338966003333 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 338966003334 Secretin and TonB N terminus short domain; Region: STN; cl06624 338966003335 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338966003336 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966003337 PilZ domain; Region: PilZ; cl01260 338966003338 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 338966003339 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 338966003340 catalytic residues [active] 338966003341 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; cl06815 338966003342 WYL domain; Region: WYL; cl14852 338966003343 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 338966003344 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 338966003345 putative active site [active] 338966003346 putative NTP binding site [chemical binding]; other site 338966003347 putative nucleic acid binding site [nucleotide binding]; other site 338966003348 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 338966003349 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 338966003350 active site 338966003351 Restriction endonuclease; Region: Mrr_cat; cl00516 338966003352 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 338966003353 nucleotide binding site/active site [active] 338966003354 HIT family signature motif; other site 338966003355 catalytic residue [active] 338966003356 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 338966003357 transposase/IS protein; Provisional; Region: PRK09183 338966003358 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 338966003359 Walker A motif; other site 338966003360 ATP binding site [chemical binding]; other site 338966003361 Walker B motif; other site 338966003362 arginine finger; other site 338966003363 Helix-turn-helix domains; Region: HTH; cl00088 338966003364 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966003365 Integrase core domain; Region: rve; cl01316 338966003366 Integrase core domain; Region: rve_3; cl15866 338966003367 Virulence protein [General function prediction only]; Region: COG3943 338966003368 Transposase domain (DUF772); Region: DUF772; pfam05598 338966003369 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003370 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003371 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 338966003372 active site 338966003373 DNA binding site [nucleotide binding] 338966003374 Int/Topo IB signature motif; other site 338966003375 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 338966003376 active site 338966003377 catalytic residues [active] 338966003378 DNA binding site [nucleotide binding] 338966003379 Int/Topo IB signature motif; other site 338966003380 Sporulation related domain; Region: SPOR; cl10051 338966003381 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 338966003382 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 338966003383 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 338966003384 active site 338966003385 HIGH motif; other site 338966003386 KMSK motif region; other site 338966003387 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 338966003388 tRNA binding surface [nucleotide binding]; other site 338966003389 anticodon binding site; other site 338966003390 Septum formation initiator; Region: DivIC; cl11433 338966003391 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 338966003392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003393 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966003394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003395 Predicted methyltransferases [General function prediction only]; Region: COG0313 338966003396 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966003397 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 338966003398 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 338966003399 tetramer interface [polypeptide binding]; other site 338966003400 TPP-binding site [chemical binding]; other site 338966003401 heterodimer interface [polypeptide binding]; other site 338966003402 phosphorylation loop region [posttranslational modification] 338966003403 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338966003404 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 338966003405 alpha subunit interface [polypeptide binding]; other site 338966003406 TPP binding site [chemical binding]; other site 338966003407 heterodimer interface [polypeptide binding]; other site 338966003408 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966003409 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 338966003410 E3 interaction surface; other site 338966003411 lipoyl attachment site [posttranslational modification]; other site 338966003412 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 338966003413 E3 interaction surface; other site 338966003414 lipoyl attachment site [posttranslational modification]; other site 338966003415 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 338966003416 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 338966003417 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 338966003418 tetramer interface [polypeptide binding]; other site 338966003419 TPP-binding site [chemical binding]; other site 338966003420 heterodimer interface [polypeptide binding]; other site 338966003421 phosphorylation loop region [posttranslational modification] 338966003422 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338966003423 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 338966003424 alpha subunit interface [polypeptide binding]; other site 338966003425 TPP binding site [chemical binding]; other site 338966003426 heterodimer interface [polypeptide binding]; other site 338966003427 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966003428 lipoyl synthase; Provisional; Region: PRK05481 338966003429 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 338966003430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966003432 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 338966003433 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 338966003434 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 338966003435 ThiC-associated domain; Region: ThiC-associated; pfam13667 338966003436 ThiC family; Region: ThiC; cl08031 338966003437 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 338966003438 acyl-CoA esterase; Provisional; Region: PRK10673 338966003439 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 338966003440 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 338966003441 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 338966003442 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966003443 GAF domain; Region: GAF; cl15785 338966003444 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 338966003445 Walker A motif; other site 338966003446 ATP binding site [chemical binding]; other site 338966003447 Walker B motif; other site 338966003448 arginine finger; other site 338966003449 Helix-turn-helix domains; Region: HTH; cl00088 338966003450 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966003451 dimer interface [polypeptide binding]; other site 338966003452 metal binding site [ion binding]; metal-binding site 338966003453 substrate binding site [chemical binding]; other site 338966003454 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 338966003455 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 338966003456 putative NAD(P) binding site [chemical binding]; other site 338966003457 catalytic Zn binding site [ion binding]; other site 338966003458 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966003459 aspartate aminotransferase; Provisional; Region: PRK06836 338966003460 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 338966003461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003462 homodimer interface [polypeptide binding]; other site 338966003463 catalytic residue [active] 338966003464 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 338966003465 active site 338966003466 metal binding site [ion binding]; metal-binding site 338966003467 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 338966003468 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 338966003469 Ligand Binding Site [chemical binding]; other site 338966003470 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 338966003471 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 338966003472 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966003473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003474 LysE type translocator; Region: LysE; cl00565 338966003475 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966003476 Helix-turn-helix domains; Region: HTH; cl00088 338966003477 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 338966003478 active site 1 [active] 338966003479 dimer interface [polypeptide binding]; other site 338966003480 hexamer interface [polypeptide binding]; other site 338966003481 active site 2 [active] 338966003482 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 338966003483 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 338966003484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966003485 Walker A/P-loop; other site 338966003486 ATP binding site [chemical binding]; other site 338966003487 Q-loop/lid; other site 338966003488 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 338966003489 ABC transporter; Region: ABC_tran_2; pfam12848 338966003490 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 338966003491 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966003492 diiron binding motif [ion binding]; other site 338966003493 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 338966003494 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966003495 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966003496 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338966003497 Walker A motif; other site 338966003498 ATP binding site [chemical binding]; other site 338966003499 Walker B motif; other site 338966003500 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 338966003501 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 338966003502 AMIN domain; Region: AMIN; pfam11741 338966003503 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 338966003504 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 338966003505 active site 338966003506 metal binding site [ion binding]; metal-binding site 338966003507 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 338966003508 MutS domain I; Region: MutS_I; pfam01624 338966003509 MutS domain II; Region: MutS_II; pfam05188 338966003510 MutS family domain IV; Region: MutS_IV; pfam05190 338966003511 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 338966003512 Walker A/P-loop; other site 338966003513 ATP binding site [chemical binding]; other site 338966003514 Q-loop/lid; other site 338966003515 ABC transporter signature motif; other site 338966003516 Walker B; other site 338966003517 D-loop; other site 338966003518 H-loop/switch region; other site 338966003519 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966003520 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 338966003521 S-adenosylmethionine binding site [chemical binding]; other site 338966003522 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 338966003523 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 338966003524 catalytic residues [active] 338966003525 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966003526 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 338966003527 ADP-ribose binding site [chemical binding]; other site 338966003528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966003529 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 338966003530 Ligand Binding Site [chemical binding]; other site 338966003531 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 338966003532 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 338966003533 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 338966003534 Walker A/P-loop; other site 338966003535 ATP binding site [chemical binding]; other site 338966003536 Q-loop/lid; other site 338966003537 ABC transporter signature motif; other site 338966003538 Walker B; other site 338966003539 D-loop; other site 338966003540 H-loop/switch region; other site 338966003541 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 338966003542 active site 338966003543 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966003544 Helix-turn-helix domains; Region: HTH; cl00088 338966003545 TPR repeat; Region: TPR_11; pfam13414 338966003546 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 338966003547 binding surface 338966003548 TPR motif; other site 338966003549 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966003550 TPR repeat; Region: TPR_11; pfam13414 338966003551 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 338966003552 TPR motif; other site 338966003553 binding surface 338966003554 TPR repeat; Region: TPR_11; pfam13414 338966003555 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 338966003556 binding surface 338966003557 TPR motif; other site 338966003558 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 338966003559 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 338966003560 FeS/SAM binding site; other site 338966003561 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 338966003562 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 338966003563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966003564 Coenzyme A binding pocket [chemical binding]; other site 338966003565 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 338966003566 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 338966003567 citrate lyase, alpha subunit; Region: citF; TIGR01584 338966003568 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 338966003569 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 338966003570 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 338966003571 trimer interface [polypeptide binding]; other site 338966003572 putative Zn binding site [ion binding]; other site 338966003573 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 338966003574 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 338966003575 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966003576 active site 338966003577 nucleotide binding site [chemical binding]; other site 338966003578 HIGH motif; other site 338966003579 KMSKS motif; other site 338966003580 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 338966003581 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 338966003582 FAD binding site [chemical binding]; other site 338966003583 YceG-like family; Region: YceG; pfam02618 338966003584 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 338966003585 dimerization interface [polypeptide binding]; other site 338966003586 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 338966003587 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 338966003588 putative active site [active] 338966003589 putative metal binding site [ion binding]; other site 338966003590 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 338966003591 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966003592 active site 338966003593 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 338966003594 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 338966003595 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 338966003596 RimM N-terminal domain; Region: RimM; pfam01782 338966003597 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 338966003598 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 338966003599 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 338966003600 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 338966003601 signal recognition particle protein; Provisional; Region: PRK10867 338966003602 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 338966003603 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 338966003604 P loop; other site 338966003605 GTP binding site [chemical binding]; other site 338966003606 Signal peptide binding domain; Region: SRP_SPB; pfam02978 338966003607 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 338966003608 Protein of unknown function (DUF721); Region: DUF721; cl02324 338966003609 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966003610 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 338966003611 FMN binding site [chemical binding]; other site 338966003612 active site 338966003613 substrate binding site [chemical binding]; other site 338966003614 catalytic residue [active] 338966003615 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003616 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003617 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003618 Transposase domain (DUF772); Region: DUF772; pfam05598 338966003619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003620 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003621 Helix-turn-helix domains; Region: HTH; cl00088 338966003622 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 338966003623 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338966003624 NADP binding site [chemical binding]; other site 338966003625 dimer interface [polypeptide binding]; other site 338966003626 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 338966003627 non-specific DNA binding site [nucleotide binding]; other site 338966003628 salt bridge; other site 338966003629 sequence-specific DNA binding site [nucleotide binding]; other site 338966003630 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966003631 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 338966003632 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 338966003633 non-specific DNA binding site [nucleotide binding]; other site 338966003634 salt bridge; other site 338966003635 sequence-specific DNA binding site [nucleotide binding]; other site 338966003636 BRO family, N-terminal domain; Region: Bro-N; cl10591 338966003637 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966003638 CHC2 zinc finger; Region: zf-CHC2; cl15369 338966003639 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; cd00188 338966003640 active site 338966003641 metal binding site [ion binding]; metal-binding site 338966003642 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966003643 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966003644 catalytic residues [active] 338966003645 catalytic nucleophile [active] 338966003646 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966003647 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966003648 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966003649 Synaptic Site I dimer interface [polypeptide binding]; other site 338966003650 DNA binding site [nucleotide binding] 338966003651 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966003652 DNA-binding interface [nucleotide binding]; DNA binding site 338966003653 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 338966003654 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 338966003655 active site 338966003656 DNA binding site [nucleotide binding] 338966003657 Int/Topo IB signature motif; other site 338966003658 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966003659 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 338966003660 binding surface 338966003661 TPR motif; other site 338966003662 Transposase domain (DUF772); Region: DUF772; pfam05598 338966003663 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003664 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966003665 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 338966003666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966003667 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 338966003668 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 338966003669 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 338966003670 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 338966003671 non-heme iron binding site [ion binding]; other site 338966003672 dimer interface [polypeptide binding]; other site 338966003673 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 338966003674 non-heme iron binding site [ion binding]; other site 338966003675 dimer interface [polypeptide binding]; other site 338966003676 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 338966003677 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 338966003678 oxalacetate binding site [chemical binding]; other site 338966003679 citrylCoA binding site [chemical binding]; other site 338966003680 coenzyme A binding site [chemical binding]; other site 338966003681 catalytic triad [active] 338966003682 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 338966003683 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 338966003684 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 338966003685 active site 338966003686 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_5; cd03408 338966003687 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 338966003688 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 338966003689 CoenzymeA binding site [chemical binding]; other site 338966003690 subunit interaction site [polypeptide binding]; other site 338966003691 PHB binding site; other site 338966003692 PAS domain S-box; Region: sensory_box; TIGR00229 338966003693 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 338966003694 PAS fold; Region: PAS_4; pfam08448 338966003695 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 338966003696 putative active site [active] 338966003697 heme pocket [chemical binding]; other site 338966003698 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966003699 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 338966003700 putative active site [active] 338966003701 heme pocket [chemical binding]; other site 338966003702 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 338966003703 dimer interface [polypeptide binding]; other site 338966003704 phosphorylation site [posttranslational modification] 338966003705 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 338966003706 ATP binding site [chemical binding]; other site 338966003707 Mg2+ binding site [ion binding]; other site 338966003708 G-X-G motif; other site 338966003709 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003710 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 338966003711 active site 338966003712 phosphorylation site [posttranslational modification] 338966003713 intermolecular recognition site; other site 338966003714 dimerization interface [polypeptide binding]; other site 338966003715 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 338966003716 dimerization interface [polypeptide binding]; other site 338966003717 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 338966003718 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 338966003719 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966003720 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 338966003721 dimer interface [polypeptide binding]; other site 338966003722 phosphorylation site [posttranslational modification] 338966003723 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 338966003724 ATP binding site [chemical binding]; other site 338966003725 Mg2+ binding site [ion binding]; other site 338966003726 G-X-G motif; other site 338966003727 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003728 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 338966003729 active site 338966003730 phosphorylation site [posttranslational modification] 338966003731 intermolecular recognition site; other site 338966003732 dimerization interface [polypeptide binding]; other site 338966003733 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966003734 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966003735 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 338966003736 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 338966003737 active site 338966003738 Int/Topo IB signature motif; other site 338966003739 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966003740 adenylosuccinate lyase; Provisional; Region: PRK07492 338966003741 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 338966003742 tetramer interface [polypeptide binding]; other site 338966003743 active site 338966003744 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966003745 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 338966003746 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 338966003747 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 338966003748 dimerization interface [polypeptide binding]; other site 338966003749 ATP binding site [chemical binding]; other site 338966003750 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 338966003751 dimerization interface [polypeptide binding]; other site 338966003752 ATP binding site [chemical binding]; other site 338966003753 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966003754 active site 338966003755 NTP binding site [chemical binding]; other site 338966003756 metal binding triad [ion binding]; metal-binding site 338966003757 antibiotic binding site [chemical binding]; other site 338966003758 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 338966003759 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 338966003760 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 338966003761 ATP binding site [chemical binding]; other site 338966003762 putative Mg++ binding site [ion binding]; other site 338966003763 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 338966003764 nucleotide binding region [chemical binding]; other site 338966003765 ATP-binding site [chemical binding]; other site 338966003766 RQC domain; Region: RQC; cl09632 338966003767 HRDC domain; Region: HRDC; cl02578 338966003768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 338966003769 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 338966003770 conserved cys residue [active] 338966003771 amidophosphoribosyltransferase; Provisional; Region: PRK09123 338966003772 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 338966003773 active site 338966003774 tetramer interface [polypeptide binding]; other site 338966003775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003776 active site 338966003777 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003778 active site 338966003779 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 338966003780 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 338966003781 RNA binding surface [nucleotide binding]; other site 338966003782 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966003783 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 338966003784 nucleotide binding site/active site [active] 338966003785 HIT family signature motif; other site 338966003786 catalytic residue [active] 338966003787 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 338966003788 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 338966003789 MgtE intracellular N domain; Region: MgtE_N; cl15244 338966003790 FOG: CBS domain [General function prediction only]; Region: COG0517 338966003791 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 338966003792 ykoK element as predicted by Rfam (RF00380), score 111.51 338966003793 OstA-like protein; Region: OstA; cl00844 338966003794 Organic solvent tolerance protein; Region: OstA_C; pfam04453 338966003795 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 338966003796 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966003797 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 338966003798 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966003799 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 338966003800 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 338966003801 substrate binding site [chemical binding]; other site 338966003802 active site 338966003803 catalytic residues [active] 338966003804 heterodimer interface [polypeptide binding]; other site 338966003805 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 338966003806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966003807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966003808 dimer interface [polypeptide binding]; other site 338966003809 putative CheW interface [polypeptide binding]; other site 338966003810 Late embryogenesis abundant protein; Region: LEA_2; cl12118 338966003811 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 338966003812 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966003813 catalytic residue [active] 338966003814 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 338966003815 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 338966003816 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 338966003817 Rrf2 family protein; Region: rrf2_super; TIGR00738 338966003818 Helix-turn-helix domains; Region: HTH; cl00088 338966003819 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 338966003820 putative peptidoglycan binding site; other site 338966003821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 338966003822 FecR protein; Region: FecR; pfam04773 338966003823 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338966003824 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 338966003825 dimer interface [polypeptide binding]; other site 338966003826 phosphorylation site [posttranslational modification] 338966003827 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 338966003828 ATP binding site [chemical binding]; other site 338966003829 Mg2+ binding site [ion binding]; other site 338966003830 G-X-G motif; other site 338966003831 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966003832 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 338966003833 active site 338966003834 phosphorylation site [posttranslational modification] 338966003835 intermolecular recognition site; other site 338966003836 dimerization interface [polypeptide binding]; other site 338966003837 ribonuclease R; Region: RNase_R; TIGR02063 338966003838 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 338966003839 RNB domain; Region: RNB; pfam00773 338966003840 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 338966003841 RNA binding site [nucleotide binding]; other site 338966003842 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966003843 biotin synthase; Validated; Region: PRK06256 338966003844 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 338966003845 FeS/SAM binding site; other site 338966003846 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 338966003847 AAA domain; Region: AAA_26; pfam13500 338966003848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966003849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966003850 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 338966003851 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 338966003852 inhibitor-cofactor binding pocket; inhibition site 338966003853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003854 catalytic residue [active] 338966003855 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966003856 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 338966003857 active site 338966003858 phosphorylation site [posttranslational modification] 338966003859 intermolecular recognition site; other site 338966003860 dimerization interface [polypeptide binding]; other site 338966003861 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 338966003862 Walker A motif; other site 338966003863 ATP binding site [chemical binding]; other site 338966003864 Walker B motif; other site 338966003865 arginine finger; other site 338966003866 Helix-turn-helix domains; Region: HTH; cl00088 338966003867 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 338966003868 CoenzymeA binding site [chemical binding]; other site 338966003869 subunit interaction site [polypeptide binding]; other site 338966003870 PHB binding site; other site 338966003871 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 338966003872 IHF dimer interface [polypeptide binding]; other site 338966003873 IHF - DNA interface [nucleotide binding]; other site 338966003874 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 338966003875 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 338966003876 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 338966003877 Walker A motif; other site 338966003878 ATP binding site [chemical binding]; other site 338966003879 Walker B motif; other site 338966003880 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 338966003881 Clp protease; Region: CLP_protease; pfam00574 338966003882 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 338966003883 oligomer interface [polypeptide binding]; other site 338966003884 active site residues [active] 338966003885 trigger factor; Region: tig; TIGR00115 338966003886 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 338966003887 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 338966003888 translation initiation factor Sui1; Validated; Region: PRK06824 338966003889 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 338966003890 putative rRNA binding site [nucleotide binding]; other site 338966003891 Restriction endonuclease; Region: Mrr_cat; cl00516 338966003892 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966003893 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 338966003894 motif II; other site 338966003895 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 338966003896 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 338966003897 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 338966003898 Active site cavity [active] 338966003899 catalytic acid [active] 338966003900 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 338966003901 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 338966003902 putative NADP binding site [chemical binding]; other site 338966003903 putative substrate binding site [chemical binding]; other site 338966003904 active site 338966003905 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 338966003906 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 338966003907 TPP-binding site; other site 338966003908 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 338966003909 PYR/PP interface [polypeptide binding]; other site 338966003910 dimer interface [polypeptide binding]; other site 338966003911 TPP binding site [chemical binding]; other site 338966003912 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966003913 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 338966003914 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 338966003915 FeS/SAM binding site; other site 338966003916 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 338966003917 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 338966003918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966003919 DNA-binding site [nucleotide binding]; DNA binding site 338966003920 UTRA domain; Region: UTRA; cl01230 338966003921 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338966003922 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 338966003923 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 338966003924 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338966003925 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966003926 hybrid cluster protein; Provisional; Region: PRK05290 338966003927 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 338966003928 ACS interaction site; other site 338966003929 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 338966003930 hybrid metal cluster; other site 338966003931 PAS domain S-box; Region: sensory_box; TIGR00229 338966003932 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 338966003933 putative active site [active] 338966003934 heme pocket [chemical binding]; other site 338966003935 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 338966003936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966003937 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966003938 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 338966003939 active site 338966003940 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 338966003941 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 338966003942 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 338966003943 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966003944 HPP family; Region: HPP; pfam04982 338966003945 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 338966003946 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 338966003947 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 338966003948 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 338966003949 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 338966003950 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 338966003951 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966003952 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 338966003953 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 338966003954 intersubunit interface [polypeptide binding]; other site 338966003955 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 338966003956 ABC-ATPase subunit interface; other site 338966003957 dimer interface [polypeptide binding]; other site 338966003958 putative PBP binding regions; other site 338966003959 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966003960 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 338966003961 Walker A motif; other site 338966003962 ATP binding site [chemical binding]; other site 338966003963 Walker B motif; other site 338966003964 arginine finger; other site 338966003965 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 338966003966 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 338966003967 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 338966003968 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 338966003969 metal ion-dependent adhesion site (MIDAS); other site 338966003970 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 338966003971 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 338966003972 dimerization interface [polypeptide binding]; other site 338966003973 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966003974 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966003975 dimer interface [polypeptide binding]; other site 338966003976 putative CheW interface [polypeptide binding]; other site 338966003977 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 338966003978 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 338966003979 Walker A/P-loop; other site 338966003980 ATP binding site [chemical binding]; other site 338966003981 Q-loop/lid; other site 338966003982 ABC transporter signature motif; other site 338966003983 Walker B; other site 338966003984 D-loop; other site 338966003985 H-loop/switch region; other site 338966003986 Cobalt transport protein; Region: CbiQ; cl00463 338966003987 Cobalt transport protein component CbiN; Region: CbiN; cl00842 338966003988 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 338966003989 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966003990 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966003991 N-terminal plug; other site 338966003992 ligand-binding site [chemical binding]; other site 338966003993 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 338966003994 active site 338966003995 catalytic triad [active] 338966003996 dimer interface [polypeptide binding]; other site 338966003997 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 338966003998 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966003999 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004000 N-terminal plug; other site 338966004001 ligand-binding site [chemical binding]; other site 338966004002 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004003 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966004004 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 338966004005 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966004006 Predicted transporter (DUF2162); Region: DUF2162; cl01990 338966004007 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966004008 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004009 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004010 N-terminal plug; other site 338966004011 ligand-binding site [chemical binding]; other site 338966004012 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 338966004013 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966004014 Cobalt transport protein component CbiN; Region: CbiN; cl00842 338966004015 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 338966004016 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966004017 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 338966004018 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 338966004019 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966004020 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 338966004021 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004022 N-terminal plug; other site 338966004023 ligand-binding site [chemical binding]; other site 338966004024 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 338966004025 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 338966004026 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966004027 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 338966004028 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966004029 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966004030 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 338966004031 L-type amino acid transporter; Region: 2A0308; TIGR00911 338966004032 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004033 N-terminal plug; other site 338966004034 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004035 ligand-binding site [chemical binding]; other site 338966004036 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 338966004037 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; cd00636 338966004038 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004039 intersubunit interface [polypeptide binding]; other site 338966004040 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 338966004041 ABC-ATPase subunit interface; other site 338966004042 dimer interface [polypeptide binding]; other site 338966004043 putative PBP binding regions; other site 338966004044 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966004045 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 338966004046 Walker A/P-loop; other site 338966004047 ATP binding site [chemical binding]; other site 338966004048 Q-loop/lid; other site 338966004049 ABC transporter signature motif; other site 338966004050 Walker B; other site 338966004051 D-loop; other site 338966004052 H-loop/switch region; other site 338966004053 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004054 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966004055 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004056 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004057 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004058 N-terminal plug; other site 338966004059 ligand-binding site [chemical binding]; other site 338966004060 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 338966004061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966004062 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 338966004063 metal ion-dependent adhesion site (MIDAS); other site 338966004064 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 338966004065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966004066 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966004067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966004068 Walker A/P-loop; other site 338966004069 ATP binding site [chemical binding]; other site 338966004070 Q-loop/lid; other site 338966004071 ABC transporter signature motif; other site 338966004072 Walker B; other site 338966004073 D-loop; other site 338966004074 H-loop/switch region; other site 338966004075 ABC-2 type transporter; Region: ABC2_membrane; cl11417 338966004076 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 338966004077 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 338966004078 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004079 N-terminal plug; other site 338966004080 ligand-binding site [chemical binding]; other site 338966004081 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 338966004082 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 338966004083 putative active site [active] 338966004084 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 338966004085 Precorrin-8X methylmutase; Region: CbiC; pfam02570 338966004086 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 338966004087 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 338966004088 FeS/SAM binding site; other site 338966004089 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966004090 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 338966004091 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 338966004092 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966004093 Virulence protein [General function prediction only]; Region: COG3943 338966004094 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966004095 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966004096 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 338966004097 Helix-turn-helix domains; Region: HTH; cl00088 338966004098 4Fe-4S binding domain; Region: Fer4; cl02805 338966004099 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 338966004100 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 338966004101 4Fe-4S binding domain; Region: Fer4; cl02805 338966004102 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 338966004103 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 338966004104 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 338966004105 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 338966004106 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966004107 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 338966004108 ArgK protein; Region: ArgK; pfam03308 338966004109 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 338966004110 Walker A; other site 338966004111 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966004112 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966004113 dimer interface [polypeptide binding]; other site 338966004114 substrate binding site [chemical binding]; other site 338966004115 metal binding site [ion binding]; metal-binding site 338966004116 membrane ATPase/protein kinase; Provisional; Region: PRK09435 338966004117 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 338966004118 Walker A; other site 338966004119 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 338966004120 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 338966004121 active site 338966004122 substrate binding site [chemical binding]; other site 338966004123 coenzyme B12 binding site [chemical binding]; other site 338966004124 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 338966004125 B12 binding site [chemical binding]; other site 338966004126 cobalt ligand [ion binding]; other site 338966004127 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 338966004128 heterodimer interface [polypeptide binding]; other site 338966004129 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 338966004130 substrate interaction site [chemical binding]; other site 338966004131 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 338966004132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966004133 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 338966004134 Ligand Binding Site [chemical binding]; other site 338966004135 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 338966004136 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 338966004137 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 338966004138 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 338966004139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004140 catalytic residue [active] 338966004141 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 338966004142 active site 338966004143 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 338966004144 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 338966004145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004146 catalytic residue [active] 338966004147 homoserine dehydrogenase; Provisional; Region: PRK06349 338966004148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004149 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 338966004150 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 338966004151 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 338966004152 putative RNA binding site [nucleotide binding]; other site 338966004153 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 338966004154 homopentamer interface [polypeptide binding]; other site 338966004155 active site 338966004156 CbiD; Region: CbiD; cl00828 338966004157 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 338966004158 Precorrin-8X methylmutase; Region: CbiC; pfam02570 338966004159 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 338966004160 putative active site [active] 338966004161 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 338966004162 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 338966004163 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 338966004164 MG2 domain; Region: A2M_N; pfam01835 338966004165 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 338966004166 Alpha-2-macroglobulin family; Region: A2M; pfam00207 338966004167 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 338966004168 surface patch; other site 338966004169 thioester region; other site 338966004170 specificity defining residues; other site 338966004171 AMMECR1; Region: AMMECR1; cl00911 338966004172 VanW like protein; Region: VanW; pfam04294 338966004173 G5 domain; Region: G5; pfam07501 338966004174 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 338966004175 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 338966004176 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 338966004177 FeS/SAM binding site; other site 338966004178 HemN C-terminal domain; Region: HemN_C; pfam06969 338966004179 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 338966004180 active site 338966004181 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 338966004182 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 338966004183 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 338966004184 Protein of unknown function (DUF507); Region: DUF507; cl01112 338966004185 Protein of unknown function (DUF507); Region: DUF507; cl01112 338966004186 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966004187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 338966004188 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966004189 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 338966004190 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966004191 catalytic residue [active] 338966004192 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 338966004193 SmpB-tmRNA interface; other site 338966004194 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 338966004195 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966004196 active site 338966004197 Int/Topo IB signature motif; other site 338966004198 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 338966004199 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 338966004200 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 338966004201 ATP binding site [chemical binding]; other site 338966004202 putative Mg++ binding site [ion binding]; other site 338966004203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966004204 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966004205 Helix-turn-helix domains; Region: HTH; cl00088 338966004206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966004207 Integrase core domain; Region: rve; cl01316 338966004208 Integrase core domain; Region: rve_3; cl15866 338966004209 transposase/IS protein; Provisional; Region: PRK09183 338966004210 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 338966004211 Walker A motif; other site 338966004212 ATP binding site [chemical binding]; other site 338966004213 Walker B motif; other site 338966004214 arginine finger; other site 338966004215 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966004216 Integrase core domain; Region: rve; cl01316 338966004217 Integrase core domain; Region: rve_3; cl15866 338966004218 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966004219 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966004220 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966004221 catalytic residues [active] 338966004222 catalytic nucleophile [active] 338966004223 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966004224 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966004225 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966004226 Synaptic Site I dimer interface [polypeptide binding]; other site 338966004227 DNA binding site [nucleotide binding] 338966004228 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966004229 DNA-binding interface [nucleotide binding]; DNA binding site 338966004230 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 338966004231 ATP binding site [chemical binding]; other site 338966004232 putative Mg++ binding site [ion binding]; other site 338966004233 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 338966004234 GIY-YIG motif/motif A; other site 338966004235 active site 338966004236 catalytic site [active] 338966004237 metal binding site [ion binding]; metal-binding site 338966004238 Integrase core domain; Region: rve; cl01316 338966004239 Integrase core domain; Region: rve_3; cl15866 338966004240 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966004241 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 338966004242 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 338966004243 active site 338966004244 Int/Topo IB signature motif; other site 338966004245 DNA binding site [nucleotide binding] 338966004246 MarC family integral membrane protein; Region: MarC; cl00919 338966004247 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 338966004248 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 338966004249 homodimer interface [polypeptide binding]; other site 338966004250 substrate-cofactor binding pocket; other site 338966004251 catalytic residue [active] 338966004252 pyruvate carboxylase; Reviewed; Region: PRK12999 338966004253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966004254 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966004255 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 338966004256 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966004257 active site 338966004258 catalytic residues [active] 338966004259 metal binding site [ion binding]; metal-binding site 338966004260 homodimer binding site [polypeptide binding]; other site 338966004261 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 338966004262 carboxyltransferase (CT) interaction site; other site 338966004263 biotinylation site [posttranslational modification]; other site 338966004264 Sodium:solute symporter family; Region: SSF; cl00456 338966004265 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 338966004266 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 338966004267 DNA binding site [nucleotide binding] 338966004268 active site 338966004269 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004270 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 338966004271 active site 338966004272 phosphorylation site [posttranslational modification] 338966004273 intermolecular recognition site; other site 338966004274 dimerization interface [polypeptide binding]; other site 338966004275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966004276 metal binding site [ion binding]; metal-binding site 338966004277 active site 338966004278 I-site; other site 338966004279 putative diguanylate cyclase; Provisional; Region: PRK09776 338966004280 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966004281 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 338966004282 PAS fold; Region: PAS_4; pfam08448 338966004283 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 338966004284 dimer interface [polypeptide binding]; other site 338966004285 phosphorylation site [posttranslational modification] 338966004286 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 338966004287 ATP binding site [chemical binding]; other site 338966004288 Mg2+ binding site [ion binding]; other site 338966004289 G-X-G motif; other site 338966004290 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004291 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 338966004292 active site 338966004293 phosphorylation site [posttranslational modification] 338966004294 intermolecular recognition site; other site 338966004295 dimerization interface [polypeptide binding]; other site 338966004296 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 338966004297 PII uridylyl-transferase; Provisional; Region: PRK05092 338966004298 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966004299 metal binding triad; other site 338966004300 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966004301 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966004302 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 338966004303 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 338966004304 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 338966004305 Chorismate mutase type II; Region: CM_2; cl00693 338966004306 prephenate dehydratase; Provisional; Region: PRK11898 338966004307 Prephenate dehydratase; Region: PDT; pfam00800 338966004308 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 338966004309 putative L-Phe binding site [chemical binding]; other site 338966004310 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 338966004311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004312 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 338966004313 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 338966004314 hinge; other site 338966004315 active site 338966004316 cytidylate kinase; Provisional; Region: cmk; PRK00023 338966004317 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 338966004318 CMP-binding site; other site 338966004319 The sites determining sugar specificity; other site 338966004320 LytB protein; Region: LYTB; cl00507 338966004321 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 338966004322 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 338966004323 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 338966004324 RNA binding site [nucleotide binding]; other site 338966004325 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 338966004326 RNA binding site [nucleotide binding]; other site 338966004327 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 338966004328 RNA binding site [nucleotide binding]; other site 338966004329 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 338966004330 RNA binding site [nucleotide binding]; other site 338966004331 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 338966004332 RNA binding site [nucleotide binding]; other site 338966004333 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 338966004334 RNA binding site [nucleotide binding]; other site 338966004335 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 338966004336 IHF dimer interface [polypeptide binding]; other site 338966004337 IHF - DNA interface [nucleotide binding]; other site 338966004338 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 338966004339 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 338966004340 FeS/SAM binding site; other site 338966004341 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966004342 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966004343 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 338966004344 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966004345 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; cl07055 338966004346 DnaA box-binding interface [nucleotide binding]; other site 338966004347 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 338966004348 FeS/SAM binding site; other site 338966004349 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966004350 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 338966004351 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004352 N-terminal plug; other site 338966004353 ligand-binding site [chemical binding]; other site 338966004354 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966004355 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 338966004356 RDD family; Region: RDD; cl00746 338966004357 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 338966004358 Phage associated DNA primase [General function prediction only]; Region: COG3378 338966004359 D5 N terminal like; Region: D5_N; cl07360 338966004360 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 338966004361 integrase; Provisional; Region: PRK09692 338966004362 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 338966004363 active site 338966004364 Int/Topo IB signature motif; other site 338966004365 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 338966004366 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 338966004367 active site 338966004368 dimer interface [polypeptide binding]; other site 338966004369 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 338966004370 dimer interface [polypeptide binding]; other site 338966004371 active site 338966004372 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 338966004373 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 338966004374 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 338966004375 ATP binding site [chemical binding]; other site 338966004376 Mg++ binding site [ion binding]; other site 338966004377 motif III; other site 338966004378 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 338966004379 nucleotide binding region [chemical binding]; other site 338966004380 ATP-binding site [chemical binding]; other site 338966004381 heat shock protein 90; Provisional; Region: PRK05218 338966004382 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 338966004383 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 338966004384 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 338966004385 dimer interface [polypeptide binding]; other site 338966004386 active site 338966004387 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 338966004388 Flagellin N-methylase; Region: FliB; cl00497 338966004389 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966004390 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 338966004391 active site 338966004392 phosphorylation site [posttranslational modification] 338966004393 intermolecular recognition site; other site 338966004394 dimerization interface [polypeptide binding]; other site 338966004395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004396 Zn2+ binding site [ion binding]; other site 338966004397 Mg2+ binding site [ion binding]; other site 338966004398 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 338966004399 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 338966004400 Competence protein; Region: Competence; cl00471 338966004401 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966004402 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 338966004403 active site 338966004404 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966004405 phosphorylation site [posttranslational modification] 338966004406 intermolecular recognition site; other site 338966004407 dimerization interface [polypeptide binding]; other site 338966004408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966004409 metal binding site [ion binding]; metal-binding site 338966004410 active site 338966004411 I-site; other site 338966004412 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 338966004413 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 338966004414 dimer interface [polypeptide binding]; other site 338966004415 motif 1; other site 338966004416 active site 338966004417 motif 2; other site 338966004418 motif 3; other site 338966004419 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 338966004420 anticodon binding site; other site 338966004421 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 338966004422 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 338966004423 active site 338966004424 Zn binding site [ion binding]; other site 338966004425 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004426 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004427 N-terminal plug; other site 338966004428 ligand-binding site [chemical binding]; other site 338966004429 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 338966004430 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 338966004431 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 338966004432 oligomer interface [polypeptide binding]; other site 338966004433 active site 338966004434 metal binding site [ion binding]; metal-binding site 338966004435 Cupin domain; Region: Cupin_2; cl09118 338966004436 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 338966004437 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 338966004438 dimer interface [polypeptide binding]; other site 338966004439 active site 338966004440 heme binding site [chemical binding]; other site 338966004441 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 338966004442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966004443 intracellular protease, PfpI family; Region: PfpI; TIGR01382 338966004444 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 338966004445 conserved cys residue [active] 338966004446 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 338966004447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004448 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966004449 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966004450 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 338966004451 dimerization interface [polypeptide binding]; other site 338966004452 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966004453 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966004454 dimer interface [polypeptide binding]; other site 338966004455 putative CheW interface [polypeptide binding]; other site 338966004456 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966004457 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966004458 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 338966004459 DNA binding residues [nucleotide binding] 338966004460 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966004461 Sensory domain found in PocR; Region: PocR; pfam10114 338966004462 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966004463 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 338966004464 PAS domain S-box; Region: sensory_box; TIGR00229 338966004465 GAF domain; Region: GAF_2; pfam13185 338966004466 GAF domain; Region: GAF; cl15785 338966004467 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 338966004468 dimer interface [polypeptide binding]; other site 338966004469 phosphorylation site [posttranslational modification] 338966004470 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 338966004471 ATP binding site [chemical binding]; other site 338966004472 Mg2+ binding site [ion binding]; other site 338966004473 G-X-G motif; other site 338966004474 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 338966004475 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 338966004476 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 338966004477 non-specific DNA binding site [nucleotide binding]; other site 338966004478 salt bridge; other site 338966004479 sequence-specific DNA binding site [nucleotide binding]; other site 338966004480 Transcriptional regulators [Transcription]; Region: PurR; COG1609 338966004481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 338966004482 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 338966004483 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 338966004484 chaperone protein DnaJ; Provisional; Region: PRK10767 338966004485 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 338966004486 HSP70 interaction site [polypeptide binding]; other site 338966004487 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 338966004488 substrate binding site [polypeptide binding]; other site 338966004489 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 338966004490 Zn binding sites [ion binding]; other site 338966004491 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338966004492 dimer interface [polypeptide binding]; other site 338966004493 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 338966004494 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 338966004495 dimer interface [polypeptide binding]; other site 338966004496 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 338966004497 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 338966004498 Helix-turn-helix domains; Region: HTH; cl00088 338966004499 HrcA protein C terminal domain; Region: HrcA; pfam01628 338966004500 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966004501 GAF domain; Region: GAF; cl15785 338966004502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004503 Zn2+ binding site [ion binding]; other site 338966004504 Mg2+ binding site [ion binding]; other site 338966004505 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 338966004506 S-adenosylmethionine binding site [chemical binding]; other site 338966004507 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966004508 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 338966004509 Sporulation and spore germination; Region: Germane; cl11253 338966004510 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 338966004511 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 338966004512 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 338966004513 substrate binding pocket [chemical binding]; other site 338966004514 dimer interface [polypeptide binding]; other site 338966004515 inhibitor binding site; inhibition site 338966004516 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 338966004517 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 338966004518 B12 binding site [chemical binding]; other site 338966004519 cobalt ligand [ion binding]; other site 338966004520 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 338966004521 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966004522 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966004523 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 338966004524 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 338966004525 S-adenosylmethionine binding site [chemical binding]; other site 338966004526 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 338966004527 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 338966004528 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966004529 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 338966004530 active site 338966004531 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966004532 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 338966004533 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 338966004534 putative ADP-binding pocket [chemical binding]; other site 338966004535 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 338966004536 S-adenosylmethionine binding site [chemical binding]; other site 338966004537 MatE; Region: MatE; cl10513 338966004538 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 338966004539 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 338966004540 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 338966004541 NADP binding site [chemical binding]; other site 338966004542 active site 338966004543 putative substrate binding site [chemical binding]; other site 338966004544 conserved hypothetical protein; Region: TIGR02231 338966004545 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 338966004546 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966004547 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 338966004548 putative active site [active] 338966004549 heme pocket [chemical binding]; other site 338966004550 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 338966004551 dimer interface [polypeptide binding]; other site 338966004552 phosphorylation site [posttranslational modification] 338966004553 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 338966004554 ATP binding site [chemical binding]; other site 338966004555 Mg2+ binding site [ion binding]; other site 338966004556 G-X-G motif; other site 338966004557 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004558 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 338966004559 active site 338966004560 phosphorylation site [posttranslational modification] 338966004561 intermolecular recognition site; other site 338966004562 dimerization interface [polypeptide binding]; other site 338966004563 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 338966004564 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 338966004565 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 338966004566 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 338966004567 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 338966004568 B12 binding site [chemical binding]; other site 338966004569 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 338966004570 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 338966004571 putative amphipathic alpha helix; other site 338966004572 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 338966004573 catalytic residues [active] 338966004574 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 338966004575 dimerization interface [polypeptide binding]; other site 338966004576 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966004577 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 338966004578 putative active site [active] 338966004579 heme pocket [chemical binding]; other site 338966004580 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 338966004581 dimer interface [polypeptide binding]; other site 338966004582 phosphorylation site [posttranslational modification] 338966004583 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 338966004584 ATP binding site [chemical binding]; other site 338966004585 Mg2+ binding site [ion binding]; other site 338966004586 G-X-G motif; other site 338966004587 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004588 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 338966004589 active site 338966004590 phosphorylation site [posttranslational modification] 338966004591 intermolecular recognition site; other site 338966004592 dimerization interface [polypeptide binding]; other site 338966004593 NMT1-like family; Region: NMT1_2; cl15260 338966004594 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966004595 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966004596 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966004597 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338966004598 putative binding surface; other site 338966004599 active site 338966004600 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 338966004601 putative FMN binding site [chemical binding]; other site 338966004602 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 338966004603 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 338966004604 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 338966004605 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 338966004606 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966004607 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 338966004608 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 338966004609 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966004610 PAS domain S-box; Region: sensory_box; TIGR00229 338966004611 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 338966004612 putative active site [active] 338966004613 heme pocket [chemical binding]; other site 338966004614 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 338966004615 Helix-turn-helix domains; Region: HTH; cl00088 338966004616 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 338966004617 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 338966004618 TOBE domain; Region: TOBE_2; cl01440 338966004619 TOBE domain; Region: TOBE_2; cl01440 338966004620 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 338966004621 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 338966004622 dimer interface [polypeptide binding]; other site 338966004623 putative functional site; other site 338966004624 putative MPT binding site; other site 338966004625 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 338966004626 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338966004627 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 338966004628 dimer interface [polypeptide binding]; other site 338966004629 putative functional site; other site 338966004630 putative MPT binding site; other site 338966004631 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966004632 synthetase active site [active] 338966004633 NTP binding site [chemical binding]; other site 338966004634 metal binding site [ion binding]; metal-binding site 338966004635 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966004636 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 338966004637 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 338966004638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966004639 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 338966004640 Walker A/P-loop; other site 338966004641 ATP binding site [chemical binding]; other site 338966004642 Q-loop/lid; other site 338966004643 ABC transporter signature motif; other site 338966004644 Walker B; other site 338966004645 D-loop; other site 338966004646 H-loop/switch region; other site 338966004647 TOBE domain; Region: TOBE_2; cl01440 338966004648 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 338966004649 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966004650 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 338966004651 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 338966004652 non-specific DNA binding site [nucleotide binding]; other site 338966004653 salt bridge; other site 338966004654 sequence-specific DNA binding site [nucleotide binding]; other site 338966004655 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 338966004656 Helix-turn-helix domains; Region: HTH; cl00088 338966004657 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 338966004658 dimer interface [polypeptide binding]; other site 338966004659 putative PBP binding regions; other site 338966004660 ABC-ATPase subunit interface; other site 338966004661 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966004662 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 338966004663 Walker A/P-loop; other site 338966004664 ATP binding site [chemical binding]; other site 338966004665 Q-loop/lid; other site 338966004666 ABC transporter signature motif; other site 338966004667 Walker B; other site 338966004668 D-loop; other site 338966004669 H-loop/switch region; other site 338966004670 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 338966004671 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 338966004672 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966004673 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 338966004674 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966004675 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 338966004676 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004677 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 338966004678 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 338966004679 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004680 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 338966004681 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966004682 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966004683 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 338966004684 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004685 N-terminal plug; other site 338966004686 ligand-binding site [chemical binding]; other site 338966004687 Ribosomal RNA methyltransferase (FmrO); Region: FmrO; pfam07091 338966004688 magnesium protoporphyrin IX methyltransferase; Region: PLN02585 338966004689 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 338966004690 S-adenosylmethionine binding site [chemical binding]; other site 338966004691 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004692 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 338966004693 FeS/SAM binding site; other site 338966004694 Uncharacterized conserved protein [Function unknown]; Region: COG2014 338966004695 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966004696 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966004697 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 338966004698 putative ligand binding residues [chemical binding]; other site 338966004699 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 338966004700 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 338966004701 Putative esterase; Region: Esterase; pfam00756 338966004702 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004703 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 338966004704 intersubunit interface [polypeptide binding]; other site 338966004705 Transposase domain (DUF772); Region: DUF772; pfam05598 338966004706 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966004707 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966004708 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 338966004709 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004710 N-terminal plug; other site 338966004711 ligand-binding site [chemical binding]; other site 338966004712 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966004713 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 338966004714 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 338966004715 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004716 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 338966004717 FeS/SAM binding site; other site 338966004718 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 338966004719 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966004720 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966004721 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 338966004722 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 338966004723 putative dimer interface [polypeptide binding]; other site 338966004724 [2Fe-2S] cluster binding site [ion binding]; other site 338966004725 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 338966004726 dimer interface [polypeptide binding]; other site 338966004727 [2Fe-2S] cluster binding site [ion binding]; other site 338966004728 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966004729 SLBB domain; Region: SLBB; pfam10531 338966004730 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 338966004731 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 338966004732 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 338966004733 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 338966004734 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966004735 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 338966004736 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 338966004737 biotin synthase; Provisional; Region: PRK07094 338966004738 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 338966004739 FeS/SAM binding site; other site 338966004740 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 338966004741 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 338966004742 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 338966004743 FeS/SAM binding site; other site 338966004744 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 338966004745 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 338966004746 Aspartase; Region: Aspartase; cd01357 338966004747 active sites [active] 338966004748 tetramer interface [polypeptide binding]; other site 338966004749 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 338966004750 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 338966004751 G1 box; other site 338966004752 GTP/Mg2+ binding site [chemical binding]; other site 338966004753 Switch I region; other site 338966004754 G2 box; other site 338966004755 Switch II region; other site 338966004756 G3 box; other site 338966004757 G4 box; other site 338966004758 G5 box; other site 338966004759 PAS domain; Region: PAS_9; pfam13426 338966004760 LytTr DNA-binding domain; Region: LytTR; cl04498 338966004761 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 338966004762 ATP synthase A chain; Region: ATP-synt_A; cl00413 338966004763 ATP synthase subunit C; Region: ATP-synt_C; cl00466 338966004764 Plant ATP synthase F0; Region: YMF19; cl07975 338966004765 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 338966004766 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 338966004767 Plant ATP synthase F0; Region: YMF19; cl07975 338966004768 Plant ATP synthase F0; Region: YMF19; cl07975 338966004769 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 338966004770 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 338966004771 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 338966004772 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 338966004773 beta subunit interaction interface [polypeptide binding]; other site 338966004774 Walker A motif; other site 338966004775 ATP binding site [chemical binding]; other site 338966004776 Walker B motif; other site 338966004777 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966004778 ATP synthase; Region: ATP-synt; cl00365 338966004779 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 338966004780 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 338966004781 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 338966004782 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 338966004783 alpha subunit interaction interface [polypeptide binding]; other site 338966004784 Walker A motif; other site 338966004785 ATP binding site [chemical binding]; other site 338966004786 Walker B motif; other site 338966004787 inhibitor binding site; inhibition site 338966004788 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966004789 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 338966004790 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 338966004791 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 338966004792 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 338966004793 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 338966004794 putative substrate translocation pore; other site 338966004795 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 338966004796 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 338966004797 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 338966004798 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966004799 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966004800 Acyl transferase domain; Region: Acyl_transf_1; cl08282 338966004801 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966004802 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 338966004803 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 338966004804 dimer interface [polypeptide binding]; other site 338966004805 active site 338966004806 CoA binding pocket [chemical binding]; other site 338966004807 lipoxygenase; Region: PLN02264 338966004808 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 338966004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004810 NAD(P) binding site [chemical binding]; other site 338966004811 active site 338966004812 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 338966004813 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 338966004814 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966004815 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 338966004816 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 338966004817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004818 homodimer interface [polypeptide binding]; other site 338966004819 catalytic residue [active] 338966004820 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966004821 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 338966004822 AMP-binding enzyme; Region: AMP-binding; cl15778 338966004823 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966004824 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 338966004825 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 338966004826 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 338966004827 anti sigma factor interaction site; other site 338966004828 regulatory phosphorylation site [posttranslational modification]; other site 338966004829 Cache domain; Region: Cache_1; pfam02743 338966004830 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 338966004831 dimerization interface [polypeptide binding]; other site 338966004832 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 338966004833 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 338966004834 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 338966004835 NMT1/THI5 like; Region: NMT1; pfam09084 338966004836 Helix-turn-helix domains; Region: HTH; cl00088 338966004837 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 338966004838 TOBE domain; Region: TOBE_2; cl01440 338966004839 TOBE domain; Region: TOBE_2; cl01440 338966004840 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 338966004841 putative nucleotide binding site [chemical binding]; other site 338966004842 putative substrate binding site [chemical binding]; other site 338966004843 Domain of unknown function (DUF1743); Region: DUF1743; cl07202 338966004844 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 338966004845 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966004846 Cysteine-rich domain; Region: CCG; pfam02754 338966004847 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 338966004848 DsrC like protein; Region: DsrC; cl01101 338966004849 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966004850 Cobalt transport protein; Region: CbiQ; cl00463 338966004851 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 338966004852 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 338966004853 Walker A/P-loop; other site 338966004854 ATP binding site [chemical binding]; other site 338966004855 Q-loop/lid; other site 338966004856 ABC transporter signature motif; other site 338966004857 Walker B; other site 338966004858 D-loop; other site 338966004859 H-loop/switch region; other site 338966004860 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 338966004861 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 338966004862 Walker A/P-loop; other site 338966004863 ATP binding site [chemical binding]; other site 338966004864 Q-loop/lid; other site 338966004865 ABC transporter signature motif; other site 338966004866 Walker B; other site 338966004867 D-loop; other site 338966004868 H-loop/switch region; other site 338966004869 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966004870 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966004871 N-terminal plug; other site 338966004872 ligand-binding site [chemical binding]; other site 338966004873 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 338966004874 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 338966004875 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 338966004876 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 338966004877 catalytic core [active] 338966004878 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 338966004879 Ligand binding site; other site 338966004880 metal-binding site 338966004881 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966004882 AMP-binding enzyme; Region: AMP-binding; cl15778 338966004883 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 338966004884 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 338966004885 S-adenosylmethionine binding site [chemical binding]; other site 338966004886 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 338966004887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004888 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 338966004889 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966004890 Cysteine-rich domain; Region: CCG; pfam02754 338966004891 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 338966004892 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 338966004893 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966004894 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 338966004895 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966004896 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 338966004897 putative MPT binding site; other site 338966004898 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 338966004899 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966004900 GAF domain; Region: GAF; cl15785 338966004901 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 338966004902 Walker A motif; other site 338966004903 ATP binding site [chemical binding]; other site 338966004904 Walker B motif; other site 338966004905 arginine finger; other site 338966004906 Helix-turn-helix domains; Region: HTH; cl00088 338966004907 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 338966004908 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966004909 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 338966004910 active site 338966004911 motif I; other site 338966004912 motif II; other site 338966004913 EamA-like transporter family; Region: EamA; cl01037 338966004914 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 338966004915 EamA-like transporter family; Region: EamA; cl01037 338966004916 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 338966004917 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 338966004918 Ligand Binding Site [chemical binding]; other site 338966004919 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966004920 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 338966004921 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966004922 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966004923 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966004924 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966004925 DTW domain; Region: DTW; cl01221 338966004926 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 338966004927 binding surface 338966004928 TPR motif; other site 338966004929 TPR repeat; Region: TPR_11; pfam13414 338966004930 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 338966004931 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966004932 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 338966004933 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 338966004934 dimer interface [polypeptide binding]; other site 338966004935 PYR/PP interface [polypeptide binding]; other site 338966004936 TPP binding site [chemical binding]; other site 338966004937 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 338966004938 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 338966004939 TPP-binding site [chemical binding]; other site 338966004940 dimer interface [polypeptide binding]; other site 338966004941 LexA repressor; Validated; Region: PRK00215 338966004942 Helix-turn-helix domains; Region: HTH; cl00088 338966004943 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 338966004944 Catalytic site [active] 338966004945 DNA polymerase IV; Reviewed; Region: PRK03103 338966004946 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966004947 active site 338966004948 DNA binding site [nucleotide binding] 338966004949 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966004950 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 338966004951 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338966004952 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 338966004953 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 338966004954 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 338966004955 Walker A/P-loop; other site 338966004956 ATP binding site [chemical binding]; other site 338966004957 Q-loop/lid; other site 338966004958 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 338966004959 ABC transporter signature motif; other site 338966004960 Walker B; other site 338966004961 D-loop; other site 338966004962 H-loop/switch region; other site 338966004963 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 338966004964 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 338966004965 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 338966004966 HIGH motif; other site 338966004967 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338966004968 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 338966004969 active site 338966004970 KMSKS motif; other site 338966004971 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 338966004972 tRNA binding surface [nucleotide binding]; other site 338966004973 anticodon binding site; other site 338966004974 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 338966004975 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 338966004976 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 338966004977 glutamine binding [chemical binding]; other site 338966004978 catalytic triad [active] 338966004979 anthranilate synthase component I; Provisional; Region: PRK13565 338966004980 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 338966004981 chorismate binding enzyme; Region: Chorismate_bind; cl10555 338966004982 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338966004983 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004984 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 338966004985 active site 338966004986 phosphorylation site [posttranslational modification] 338966004987 intermolecular recognition site; other site 338966004988 dimerization interface [polypeptide binding]; other site 338966004989 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966004990 NeuB family; Region: NeuB; cl00496 338966004991 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 338966004992 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 338966004993 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 338966004994 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338966004995 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 338966004996 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 338966004997 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 338966004998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966004999 CoA-ligase; Region: Ligase_CoA; cl02894 338966005000 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966005001 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 338966005002 lipoyl attachment site [posttranslational modification]; other site 338966005003 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 338966005004 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 338966005005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005006 tetramer interface [polypeptide binding]; other site 338966005007 catalytic residue [active] 338966005008 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 338966005009 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 338966005010 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966005011 catalytic residue [active] 338966005012 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338966005013 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 338966005014 substrate binding pocket [chemical binding]; other site 338966005015 membrane-bound complex binding site; other site 338966005016 hinge residues; other site 338966005017 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 338966005018 GAF domain; Region: GAF_2; pfam13185 338966005019 GAF domain; Region: GAF; cl15785 338966005020 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 338966005021 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 338966005022 ATP binding site [chemical binding]; other site 338966005023 Mg2+ binding site [ion binding]; other site 338966005024 G-X-G motif; other site 338966005025 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 338966005026 Lumazine binding domain; Region: Lum_binding; pfam00677 338966005027 Lumazine binding domain; Region: Lum_binding; pfam00677 338966005028 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 338966005029 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 338966005030 catalytic motif [active] 338966005031 Zn binding site [ion binding]; other site 338966005032 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 338966005033 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 338966005034 ATP cone domain; Region: ATP-cone; pfam03477 338966005035 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 338966005036 catalytic motif [active] 338966005037 Zn binding site [ion binding]; other site 338966005038 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005039 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 338966005040 active site 338966005041 phosphorylation site [posttranslational modification] 338966005042 intermolecular recognition site; other site 338966005043 dimerization interface [polypeptide binding]; other site 338966005044 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 338966005045 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 338966005046 Walker A motif; other site 338966005047 ATP binding site [chemical binding]; other site 338966005048 Walker B motif; other site 338966005049 arginine finger; other site 338966005050 Helix-turn-helix domains; Region: HTH; cl00088 338966005051 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338966005052 putative CheA interaction surface; other site 338966005053 PAS fold; Region: PAS_4; pfam08448 338966005054 PAS fold; Region: PAS_4; pfam08448 338966005055 PAS fold; Region: PAS_4; pfam08448 338966005056 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005057 dimer interface [polypeptide binding]; other site 338966005058 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966005059 putative CheW interface [polypeptide binding]; other site 338966005060 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 338966005061 dimer interface [polypeptide binding]; other site 338966005062 phosphorylation site [posttranslational modification] 338966005063 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 338966005064 ATP binding site [chemical binding]; other site 338966005065 Mg2+ binding site [ion binding]; other site 338966005066 G-X-G motif; other site 338966005067 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005068 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 338966005069 active site 338966005070 phosphorylation site [posttranslational modification] 338966005071 intermolecular recognition site; other site 338966005072 dimerization interface [polypeptide binding]; other site 338966005073 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005074 methyl-accepting protein IV; Provisional; Region: PRK09793 338966005075 putative CheW interface [polypeptide binding]; other site 338966005076 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 338966005077 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005078 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 338966005079 active site 338966005080 phosphorylation site [posttranslational modification] 338966005081 intermolecular recognition site; other site 338966005082 dimerization interface [polypeptide binding]; other site 338966005083 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338966005084 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966005085 putative binding surface; other site 338966005086 active site 338966005087 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966005088 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 338966005089 ATP binding site [chemical binding]; other site 338966005090 Mg2+ binding site [ion binding]; other site 338966005091 G-X-G motif; other site 338966005092 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 338966005093 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966005094 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 338966005095 dimerization interface [polypeptide binding]; other site 338966005096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005097 dimer interface [polypeptide binding]; other site 338966005098 putative CheW interface [polypeptide binding]; other site 338966005099 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338966005100 putative CheA interaction surface; other site 338966005101 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 338966005102 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966005103 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966005104 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338966005105 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 338966005106 active site 338966005107 phosphorylation site [posttranslational modification] 338966005108 intermolecular recognition site; other site 338966005109 dimerization interface [polypeptide binding]; other site 338966005110 CheB methylesterase; Region: CheB_methylest; pfam01339 338966005111 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 338966005112 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 338966005113 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 338966005114 Ligand binding site; other site 338966005115 oligomer interface; other site 338966005116 CTP synthetase; Validated; Region: pyrG; PRK05380 338966005117 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 338966005118 Catalytic site [active] 338966005119 active site 338966005120 UTP binding site [chemical binding]; other site 338966005121 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 338966005122 active site 338966005123 putative oxyanion hole; other site 338966005124 catalytic triad [active] 338966005125 NeuB family; Region: NeuB; cl00496 338966005126 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966005127 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966005128 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 338966005129 homodimer interface [polypeptide binding]; other site 338966005130 Walker A motif; other site 338966005131 ATP binding site [chemical binding]; other site 338966005132 hydroxycobalamin binding site [chemical binding]; other site 338966005133 Walker B motif; other site 338966005134 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 338966005135 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966005136 active site 338966005137 NTP binding site [chemical binding]; other site 338966005138 metal binding triad [ion binding]; metal-binding site 338966005139 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338966005140 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 338966005141 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 338966005142 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 338966005143 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 338966005144 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966005145 PAS domain S-box; Region: sensory_box; TIGR00229 338966005146 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 338966005147 putative active site [active] 338966005148 heme pocket [chemical binding]; other site 338966005149 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 338966005150 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 338966005151 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 338966005152 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966005153 NADH dehydrogenase subunit B; Provisional; Region: PRK14817 338966005154 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966005155 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966005156 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966005157 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 338966005158 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 338966005159 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 338966005160 putative dimer interface [polypeptide binding]; other site 338966005161 [2Fe-2S] cluster binding site [ion binding]; other site 338966005162 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 338966005163 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 338966005164 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 338966005165 catalytic loop [active] 338966005166 iron binding site [ion binding]; other site 338966005167 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 338966005168 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966005169 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; cd00368 338966005170 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 338966005171 NADH dehydrogenase; Region: NADHdh; cl00469 338966005172 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 338966005173 4Fe-4S binding domain; Region: Fer4; cl02805 338966005174 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 338966005175 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966005176 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966005177 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966005178 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966005179 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966005180 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966005181 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966005182 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 338966005183 putative catalytic site [active] 338966005184 putative phosphate binding site [ion binding]; other site 338966005185 active site 338966005186 metal binding site A [ion binding]; metal-binding site 338966005187 DNA binding site [nucleotide binding] 338966005188 putative AP binding site [nucleotide binding]; other site 338966005189 putative metal binding site B [ion binding]; other site 338966005190 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966005191 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 338966005192 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 338966005193 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966005194 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 338966005195 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 338966005196 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 338966005197 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 338966005198 active site 338966005199 ADP/pyrophosphate binding site [chemical binding]; other site 338966005200 dimerization interface [polypeptide binding]; other site 338966005201 allosteric effector site; other site 338966005202 fructose-1,6-bisphosphate binding site; other site 338966005203 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 338966005204 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 338966005205 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 338966005206 origin recognition complex 1 protein; Provisional; Region: PTZ00112 338966005207 Transposase domain (DUF772); Region: DUF772; pfam05598 338966005208 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005209 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966005210 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 338966005211 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 338966005212 Ligand Binding Site [chemical binding]; other site 338966005213 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 338966005214 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 338966005215 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 338966005216 dimerization interface [polypeptide binding]; other site 338966005217 active site 338966005218 enolase; Provisional; Region: eno; PRK00077 338966005219 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 338966005220 dimer interface [polypeptide binding]; other site 338966005221 metal binding site [ion binding]; metal-binding site 338966005222 substrate binding pocket [chemical binding]; other site 338966005223 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966005224 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 338966005225 active site 338966005226 phosphorylation site [posttranslational modification] 338966005227 intermolecular recognition site; other site 338966005228 dimerization interface [polypeptide binding]; other site 338966005229 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 338966005230 Walker A motif; other site 338966005231 ATP binding site [chemical binding]; other site 338966005232 Walker B motif; other site 338966005233 arginine finger; other site 338966005234 Helix-turn-helix domains; Region: HTH; cl00088 338966005235 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966005236 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 338966005237 Walker A/P-loop; other site 338966005238 ATP binding site [chemical binding]; other site 338966005239 Q-loop/lid; other site 338966005240 ABC transporter signature motif; other site 338966005241 Walker B; other site 338966005242 D-loop; other site 338966005243 H-loop/switch region; other site 338966005244 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 338966005245 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 338966005246 active site 338966005247 HIGH motif; other site 338966005248 KMSKS motif; other site 338966005249 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 338966005250 tRNA binding surface [nucleotide binding]; other site 338966005251 anticodon binding site; other site 338966005252 PSP1 C-terminal conserved region; Region: PSP1; cl00770 338966005253 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 338966005254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005255 DNA polymerase III subunit delta'; Validated; Region: PRK07940 338966005256 thymidylate kinase; Validated; Region: tmk; PRK00698 338966005257 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 338966005258 TMP-binding site; other site 338966005259 ATP-binding site [chemical binding]; other site 338966005260 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 338966005261 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 338966005262 dimer interface [polypeptide binding]; other site 338966005263 PYR/PP interface [polypeptide binding]; other site 338966005264 TPP binding site [chemical binding]; other site 338966005265 substrate binding site [chemical binding]; other site 338966005266 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 338966005267 TPP-binding site; other site 338966005268 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966005269 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 338966005270 active site clefts [active] 338966005271 zinc binding site [ion binding]; other site 338966005272 dimer interface [polypeptide binding]; other site 338966005273 AMP-binding enzyme; Region: AMP-binding; cl15778 338966005274 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 338966005275 ACT domain-containing protein [General function prediction only]; Region: COG4747 338966005276 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 338966005277 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 338966005278 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 338966005279 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 338966005280 putative ligand binding site [chemical binding]; other site 338966005281 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 338966005282 TM-ABC transporter signature motif; other site 338966005283 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 338966005284 TM-ABC transporter signature motif; other site 338966005285 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338966005286 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 338966005287 Walker A/P-loop; other site 338966005288 ATP binding site [chemical binding]; other site 338966005289 Q-loop/lid; other site 338966005290 ABC transporter signature motif; other site 338966005291 Walker B; other site 338966005292 D-loop; other site 338966005293 H-loop/switch region; other site 338966005294 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338966005295 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 338966005296 Walker A/P-loop; other site 338966005297 ATP binding site [chemical binding]; other site 338966005298 Q-loop/lid; other site 338966005299 ABC transporter signature motif; other site 338966005300 Walker B; other site 338966005301 D-loop; other site 338966005302 H-loop/switch region; other site 338966005303 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 338966005304 active site 338966005305 dimer interface [polypeptide binding]; other site 338966005306 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 338966005307 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 338966005308 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 338966005309 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966005310 PilZ domain; Region: PilZ; cl01260 338966005311 Nitrogen regulatory protein P-II; Region: P-II; cl00412 338966005312 Nitrogen regulatory protein P-II; Region: P-II; smart00938 338966005313 glutamine synthetase, type I; Region: GlnA; TIGR00653 338966005314 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 338966005315 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338966005316 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 338966005317 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 338966005318 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338966005319 Conserved TM helix; Region: TM_helix; pfam05552 338966005320 Conserved TM helix; Region: TM_helix; pfam05552 338966005321 Conserved TM helix; Region: TM_helix; pfam05552 338966005322 Conserved TM helix; Region: TM_helix; pfam05552 338966005323 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 338966005324 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 338966005325 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 338966005326 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 338966005327 RNA binding site [nucleotide binding]; other site 338966005328 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 338966005329 active site 338966005330 putative substrate binding region [chemical binding]; other site 338966005331 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 338966005332 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 338966005333 active site 338966005334 HIGH motif; other site 338966005335 dimer interface [polypeptide binding]; other site 338966005336 KMSKS motif; other site 338966005337 ScpA/B protein; Region: ScpA_ScpB; cl00598 338966005338 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 338966005339 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 338966005340 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 338966005341 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 338966005342 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 338966005343 putative ligand binding pocket/active site [active] 338966005344 putative metal binding site [ion binding]; other site 338966005345 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 338966005346 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 338966005347 substrate binding site [chemical binding]; other site 338966005348 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 338966005349 substrate binding site [chemical binding]; other site 338966005350 ligand binding site [chemical binding]; other site 338966005351 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966005352 Phosphoglycerate kinase; Region: PGK; pfam00162 338966005353 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 338966005354 substrate binding site [chemical binding]; other site 338966005355 hinge regions; other site 338966005356 ADP binding site [chemical binding]; other site 338966005357 catalytic site [active] 338966005358 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 338966005359 substrate binding site [chemical binding]; other site 338966005360 dimer interface [polypeptide binding]; other site 338966005361 catalytic triad [active] 338966005362 Preprotein translocase SecG subunit; Region: SecG; cl09123 338966005363 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 338966005364 Ferritin-like domain; Region: Ferritin; pfam00210 338966005365 ferroxidase diiron center [ion binding]; other site 338966005366 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 338966005367 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 338966005368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005369 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 338966005370 putative L-serine binding site [chemical binding]; other site 338966005371 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 338966005372 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 338966005373 Pseudouridine synthase, TruD family; Region: PseudoU_synth_ScPUS7; cd02576 338966005374 probable active site [active] 338966005375 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338966005376 active site 338966005377 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 338966005378 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 338966005379 Protein of unknown function (DUF503); Region: DUF503; cl00669 338966005380 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 338966005381 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 338966005382 putative dimer interface [polypeptide binding]; other site 338966005383 putative anticodon binding site; other site 338966005384 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 338966005385 homodimer interface [polypeptide binding]; other site 338966005386 motif 1; other site 338966005387 motif 2; other site 338966005388 active site 338966005389 motif 3; other site 338966005390 selenophosphate synthetase; Provisional; Region: PRK00943 338966005391 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 338966005392 dimerization interface [polypeptide binding]; other site 338966005393 putative ATP binding site [chemical binding]; other site 338966005394 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 338966005395 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 338966005396 CPxP motif; other site 338966005397 DsrE/DsrF-like family; Region: DrsE; cl00672 338966005398 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 338966005399 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 338966005400 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 338966005401 NAD(P) binding site [chemical binding]; other site 338966005402 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 338966005403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005404 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966005405 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 338966005406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005407 CoA-ligase; Region: Ligase_CoA; cl02894 338966005408 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 338966005409 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966005410 CoA-ligase; Region: Ligase_CoA; cl02894 338966005411 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 338966005412 PrkA AAA domain; Region: AAA_PrkA; smart00763 338966005413 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 338966005414 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 338966005415 SpoVR like protein; Region: SpoVR; pfam04293 338966005416 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 338966005417 PrkA AAA domain; Region: AAA_PrkA; smart00763 338966005418 YtxH-like protein; Region: YtxH; cl02079 338966005419 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966005420 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 338966005421 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 338966005422 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966005423 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 338966005424 FeS/SAM binding site; other site 338966005425 TRAM domain; Region: TRAM; cl01282 338966005426 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 338966005427 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966005428 active site 338966005429 HIGH motif; other site 338966005430 nucleotide binding site [chemical binding]; other site 338966005431 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 338966005432 KMSKS motif; other site 338966005433 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 338966005434 GTPase Era; Reviewed; Region: era; PRK00089 338966005435 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 338966005436 G1 box; other site 338966005437 GTP/Mg2+ binding site [chemical binding]; other site 338966005438 Switch I region; other site 338966005439 G2 box; other site 338966005440 Switch II region; other site 338966005441 G3 box; other site 338966005442 G4 box; other site 338966005443 G5 box; other site 338966005444 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 338966005445 GTP-binding protein Der; Reviewed; Region: PRK00093 338966005446 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 338966005447 G1 box; other site 338966005448 GTP/Mg2+ binding site [chemical binding]; other site 338966005449 Switch I region; other site 338966005450 G2 box; other site 338966005451 Switch II region; other site 338966005452 G3 box; other site 338966005453 G4 box; other site 338966005454 G5 box; other site 338966005455 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 338966005456 G1 box; other site 338966005457 GTP/Mg2+ binding site [chemical binding]; other site 338966005458 Switch I region; other site 338966005459 G2 box; other site 338966005460 G3 box; other site 338966005461 Switch II region; other site 338966005462 G4 box; other site 338966005463 G5 box; other site 338966005464 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966005465 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 338966005466 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 338966005467 active site 338966005468 phosphorylation site [posttranslational modification] 338966005469 intermolecular recognition site; other site 338966005470 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338966005471 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966005472 putative binding surface; other site 338966005473 active site 338966005474 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966005475 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 338966005476 ATP binding site [chemical binding]; other site 338966005477 Mg2+ binding site [ion binding]; other site 338966005478 G-X-G motif; other site 338966005479 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 338966005480 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338966005481 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 338966005482 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 338966005483 HIGH motif; other site 338966005484 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338966005485 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 338966005486 active site 338966005487 KMSKS motif; other site 338966005488 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 338966005489 tRNA binding surface [nucleotide binding]; other site 338966005490 Lipopolysaccharide-assembly; Region: LptE; cl01125 338966005491 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 338966005492 DNA polymerase III, delta subunit; Region: holA; TIGR01128 338966005493 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966005494 Chorismate mutase type II; Region: CM_2; cl00693 338966005495 L-aspartate oxidase; Provisional; Region: PRK09077 338966005496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005497 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338966005498 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 338966005499 Clp amino terminal domain; Region: Clp_N; pfam02861 338966005500 Clp amino terminal domain; Region: Clp_N; pfam02861 338966005501 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 338966005502 Walker A motif; other site 338966005503 ATP binding site [chemical binding]; other site 338966005504 Walker B motif; other site 338966005505 arginine finger; other site 338966005506 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 338966005507 Walker A motif; other site 338966005508 ATP binding site [chemical binding]; other site 338966005509 Walker B motif; other site 338966005510 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 338966005511 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 338966005512 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 338966005513 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 338966005514 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 338966005515 Acyl transferase domain; Region: Acyl_transf_1; cl08282 338966005516 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966005517 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338966005518 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 338966005519 NAD(P) binding site [chemical binding]; other site 338966005520 homotetramer interface [polypeptide binding]; other site 338966005521 homodimer interface [polypeptide binding]; other site 338966005522 active site 338966005523 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966005524 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 338966005525 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 338966005526 dimer interface [polypeptide binding]; other site 338966005527 active site 338966005528 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 338966005529 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 338966005530 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 338966005531 dimer interface [polypeptide binding]; other site 338966005532 active site 338966005533 glycine-pyridoxal phosphate binding site [chemical binding]; other site 338966005534 folate binding site [chemical binding]; other site 338966005535 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 338966005536 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966005537 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 338966005538 motif II; other site 338966005539 VanZ like family; Region: VanZ; cl01971 338966005540 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 338966005541 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 338966005542 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 338966005543 prolyl-tRNA synthetase; Provisional; Region: PRK09194 338966005544 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 338966005545 dimer interface [polypeptide binding]; other site 338966005546 motif 1; other site 338966005547 active site 338966005548 motif 2; other site 338966005549 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 338966005550 putative deacylase active site [active] 338966005551 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 338966005552 active site 338966005553 motif 3; other site 338966005554 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 338966005555 anticodon binding site; other site 338966005556 AMP-binding enzyme; Region: AMP-binding; cl15778 338966005557 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 338966005558 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 338966005559 Replication initiation factor; Region: Rep_trans; pfam02486 338966005560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005561 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 338966005562 rRNA binding site [nucleotide binding]; other site 338966005563 predicted 30S ribosome binding site; other site 338966005564 elongation factor P; Validated; Region: PRK00529 338966005565 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 338966005566 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 338966005567 RNA binding site [nucleotide binding]; other site 338966005568 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 338966005569 RNA binding site [nucleotide binding]; other site 338966005570 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 338966005571 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 338966005572 motif 1; other site 338966005573 dimer interface [polypeptide binding]; other site 338966005574 active site 338966005575 motif 2; other site 338966005576 motif 3; other site 338966005577 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 338966005578 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966005579 FeS/SAM binding site; other site 338966005580 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 338966005581 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966005582 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 338966005583 Walker A motif; other site 338966005584 ATP binding site [chemical binding]; other site 338966005585 Walker B motif; other site 338966005586 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 338966005587 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338966005588 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 338966005589 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966005590 catalytic residue [active] 338966005591 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005592 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966005593 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 338966005594 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 338966005595 dimerization interface [polypeptide binding]; other site 338966005596 putative ATP binding site [chemical binding]; other site 338966005597 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 338966005598 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 338966005599 active site 338966005600 substrate binding site [chemical binding]; other site 338966005601 cosubstrate binding site; other site 338966005602 catalytic site [active] 338966005603 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 338966005604 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 338966005605 AMP binding site [chemical binding]; other site 338966005606 metal binding site [ion binding]; metal-binding site 338966005607 active site 338966005608 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966005609 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 338966005610 FeS/SAM binding site; other site 338966005611 ribonuclease III; Reviewed; Region: rnc; PRK00102 338966005612 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 338966005613 dimerization interface [polypeptide binding]; other site 338966005614 active site 338966005615 metal binding site [ion binding]; metal-binding site 338966005616 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 338966005617 dsRNA binding site [nucleotide binding]; other site 338966005618 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 338966005619 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 338966005620 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 338966005621 PhoU domain; Region: PhoU; pfam01895 338966005622 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 338966005623 IHF dimer interface [polypeptide binding]; other site 338966005624 IHF - DNA interface [nucleotide binding]; other site 338966005625 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 338966005626 binding surface 338966005627 TPR motif; other site 338966005628 TRAM domain; Region: TRAM; cl01282 338966005629 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 338966005630 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 338966005631 S-adenosylmethionine binding site [chemical binding]; other site 338966005632 Creatinine amidohydrolase; Region: Creatininase; cl00618 338966005633 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 338966005634 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 338966005635 FeS/SAM binding site; other site 338966005636 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 338966005637 active site 338966005638 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 338966005639 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 338966005640 homodimer interface [polypeptide binding]; other site 338966005641 substrate-cofactor binding pocket; other site 338966005642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005643 catalytic residue [active] 338966005644 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 338966005645 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 338966005646 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 338966005647 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 338966005648 PhnA protein; Region: PhnA; pfam03831 338966005649 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 338966005650 Protein of unknown function (DUF456); Region: DUF456; cl01069 338966005651 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 338966005652 Cation efflux family; Region: Cation_efflux; cl00316 338966005653 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 338966005654 DHH family; Region: DHH; pfam01368 338966005655 DHHA1 domain; Region: DHHA1; pfam02272 338966005656 TPR repeat; Region: TPR_11; pfam13414 338966005657 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 338966005658 binding surface 338966005659 TPR motif; other site 338966005660 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 338966005661 Protein export membrane protein; Region: SecD_SecF; cl14618 338966005662 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 338966005663 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 338966005664 Protein export membrane protein; Region: SecD_SecF; cl14618 338966005665 Preprotein translocase subunit; Region: YajC; cl00806 338966005666 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 338966005667 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 338966005668 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 338966005669 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 338966005670 Stage II sporulation protein; Region: SpoIID; pfam08486 338966005671 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 338966005672 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 338966005673 PDGLE domain; Region: PDGLE; cl07986 338966005674 Cobalt transport protein; Region: CbiQ; cl00463 338966005675 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 338966005676 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 338966005677 Walker A/P-loop; other site 338966005678 ATP binding site [chemical binding]; other site 338966005679 Q-loop/lid; other site 338966005680 ABC transporter signature motif; other site 338966005681 Walker B; other site 338966005682 D-loop; other site 338966005683 H-loop/switch region; other site 338966005684 AsmA-like C-terminal region; Region: AsmA_2; cl15864 338966005685 glycerate dehydrogenase; Provisional; Region: PRK06487 338966005686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005687 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 338966005688 Baseplate J-like protein; Region: Baseplate_J; cl01294 338966005689 Baseplate J-like protein; Region: Baseplate_J; cl01294 338966005690 Baseplate J-like protein; Region: Baseplate_J; cl01294 338966005691 Baseplate J-like protein; Region: Baseplate_J; cl01294 338966005692 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 338966005693 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 338966005694 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 338966005695 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 338966005696 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966005697 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966005698 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 338966005699 Walker A motif; other site 338966005700 ATP binding site [chemical binding]; other site 338966005701 Walker B motif; other site 338966005702 arginine finger; other site 338966005703 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 338966005704 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 338966005705 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966005706 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966005707 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005708 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 338966005709 Chemotaxis phosphatase CheX; Region: CheX; cl15816 338966005710 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 338966005711 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 338966005712 homodimer interface [polypeptide binding]; other site 338966005713 substrate-cofactor binding pocket; other site 338966005714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005715 catalytic residue [active] 338966005716 cystathionine beta-lyase; Provisional; Region: PRK08064 338966005717 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 338966005718 homodimer interface [polypeptide binding]; other site 338966005719 substrate-cofactor binding pocket; other site 338966005720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005721 catalytic residue [active] 338966005722 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 338966005723 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 338966005724 dimer interface [polypeptide binding]; other site 338966005725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005726 catalytic residue [active] 338966005727 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 338966005728 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 338966005729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005730 ATP binding site [chemical binding]; other site 338966005731 substrate interface [chemical binding]; other site 338966005732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966005733 metal binding site [ion binding]; metal-binding site 338966005734 active site 338966005735 I-site; other site 338966005736 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338966005737 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 338966005738 ligand binding site [chemical binding]; other site 338966005739 flexible hinge region; other site 338966005740 Helix-turn-helix domains; Region: HTH; cl00088 338966005741 Transposase domain (DUF772); Region: DUF772; pfam05598 338966005742 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005743 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966005744 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 338966005745 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 338966005746 Ligand Binding Site [chemical binding]; other site 338966005747 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338966005748 Sel1 repeat; Region: Sel1; cl02723 338966005749 putative transposase OrfB; Reviewed; Region: PHA02517 338966005750 Integrase core domain; Region: rve; cl01316 338966005751 Integrase core domain; Region: rve_3; cl15866 338966005752 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 338966005753 Helix-turn-helix domains; Region: HTH; cl00088 338966005754 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966005755 active site 338966005756 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 338966005757 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 338966005758 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 338966005759 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005760 ATP binding site [chemical binding]; other site 338966005761 DEAD_2; Region: DEAD_2; pfam06733 338966005762 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005763 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 338966005764 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966005765 Haemolytic domain; Region: Haemolytic; cl00506 338966005766 Short C-terminal domain; Region: SHOCT; cl01373 338966005767 pyruvate kinase; Provisional; Region: PRK05826 338966005768 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 338966005769 domain interfaces; other site 338966005770 active site 338966005771 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 338966005772 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 338966005773 active site 338966005774 intersubunit interface [polypeptide binding]; other site 338966005775 zinc binding site [ion binding]; other site 338966005776 Na+ binding site [ion binding]; other site 338966005777 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 338966005778 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 338966005779 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 338966005780 ATP binding site [chemical binding]; other site 338966005781 putative Mg++ binding site [ion binding]; other site 338966005782 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 338966005783 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966005784 Fic family protein [Function unknown]; Region: COG3177 338966005785 Fic/DOC family; Region: Fic; cl00960 338966005786 Helix-turn-helix domains; Region: HTH; cl00088 338966005787 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338966005788 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 338966005789 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966005790 integrase; Provisional; Region: PRK09692 338966005791 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 338966005792 active site 338966005793 Int/Topo IB signature motif; other site 338966005794 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 338966005795 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 338966005796 putative FMN binding site [chemical binding]; other site 338966005797 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 338966005798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005799 NAD(P) binding site [chemical binding]; other site 338966005800 active site 338966005801 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 338966005802 putative FMN binding site [chemical binding]; other site 338966005803 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 338966005804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005805 Family description; Region: UvrD_C_2; cl15862 338966005806 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 338966005807 hypothetical protein; Provisional; Region: PRK05590 338966005808 SEC-C motif; Region: SEC-C; pfam02810 338966005809 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 338966005810 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 338966005811 catalytic triad [active] 338966005812 conserved cis-peptide bond; other site 338966005813 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 338966005814 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338966005815 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 338966005816 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 338966005817 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966005818 active site 338966005819 substrate binding site [chemical binding]; other site 338966005820 Mg2+ binding site [ion binding]; other site 338966005821 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 338966005822 IHF dimer interface [polypeptide binding]; other site 338966005823 IHF - DNA interface [nucleotide binding]; other site 338966005824 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338966005825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005826 Family description; Region: UvrD_C_2; cl15862 338966005827 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 338966005828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966005829 Walker A/P-loop; other site 338966005830 ATP binding site [chemical binding]; other site 338966005831 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 338966005832 putative active site [active] 338966005833 putative metal-binding site [ion binding]; other site 338966005834 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 338966005835 Protein of unknown function (DUF499); Region: DUF499; pfam04465 338966005836 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 338966005837 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 338966005838 ATP binding site [chemical binding]; other site 338966005839 putative Mg++ binding site [ion binding]; other site 338966005840 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 338966005841 nucleotide binding region [chemical binding]; other site 338966005842 ATP-binding site [chemical binding]; other site 338966005843 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 338966005844 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 338966005845 nucleotide binding site [chemical binding]; other site 338966005846 SulA interaction site; other site 338966005847 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 338966005848 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966005849 putative active site [active] 338966005850 heme pocket [chemical binding]; other site 338966005851 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 338966005852 dimer interface [polypeptide binding]; other site 338966005853 phosphorylation site [posttranslational modification] 338966005854 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 338966005855 ATP binding site [chemical binding]; other site 338966005856 Mg2+ binding site [ion binding]; other site 338966005857 G-X-G motif; other site 338966005858 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005859 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 338966005860 active site 338966005861 phosphorylation site [posttranslational modification] 338966005862 intermolecular recognition site; other site 338966005863 dimerization interface [polypeptide binding]; other site 338966005864 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338966005865 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 338966005866 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 338966005867 Walker A motif; other site 338966005868 ATP binding site [chemical binding]; other site 338966005869 Walker B motif; other site 338966005870 arginine finger; other site 338966005871 RecT family; Region: RecT; cl04285 338966005872 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338966005873 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966005874 MPN+ (JAMM) motif; other site 338966005875 Zinc-binding site [ion binding]; other site 338966005876 Methyltransferase domain; Region: Methyltransf_27; pfam13708 338966005877 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966005878 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 338966005879 Walker A motif; other site 338966005880 ATP binding site [chemical binding]; other site 338966005881 Walker B motif; other site 338966005882 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966005883 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 338966005884 IHF dimer interface [polypeptide binding]; other site 338966005885 IHF - DNA interface [nucleotide binding]; other site 338966005886 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 338966005887 metal ion-dependent adhesion site (MIDAS); other site 338966005888 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 338966005889 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 338966005890 IHF dimer interface [polypeptide binding]; other site 338966005891 IHF - DNA interface [nucleotide binding]; other site 338966005892 LexA repressor; Validated; Region: PRK00215 338966005893 Helix-turn-helix domains; Region: HTH; cl00088 338966005894 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 338966005895 Catalytic site [active] 338966005896 DNA polymerase IV; Reviewed; Region: PRK03103 338966005897 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966005898 active site 338966005899 DNA binding site [nucleotide binding] 338966005900 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966005901 GNS1/SUR4 family; Region: ELO; cl03120 338966005902 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 338966005903 non-specific DNA binding site [nucleotide binding]; other site 338966005904 salt bridge; other site 338966005905 sequence-specific DNA binding site [nucleotide binding]; other site 338966005906 ParB-like nuclease domain; Region: ParBc; cl02129 338966005907 N-acetyltransferase; Region: Acetyltransf_2; cl00949 338966005908 putative diguanylate cyclase; Provisional; Region: PRK09776 338966005909 PAS domain S-box; Region: sensory_box; TIGR00229 338966005910 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 338966005911 putative active site [active] 338966005912 heme pocket [chemical binding]; other site 338966005913 PAS fold; Region: PAS_3; pfam08447 338966005914 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 338966005915 PAS fold; Region: PAS_3; pfam08447 338966005916 putative active site [active] 338966005917 heme pocket [chemical binding]; other site 338966005918 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 338966005919 dimer interface [polypeptide binding]; other site 338966005920 phosphorylation site [posttranslational modification] 338966005921 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 338966005922 ATP binding site [chemical binding]; other site 338966005923 Mg2+ binding site [ion binding]; other site 338966005924 G-X-G motif; other site 338966005925 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966005926 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 338966005927 active site 338966005928 phosphorylation site [posttranslational modification] 338966005929 intermolecular recognition site; other site 338966005930 dimerization interface [polypeptide binding]; other site 338966005931 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 338966005932 IHF dimer interface [polypeptide binding]; other site 338966005933 IHF - DNA interface [nucleotide binding]; other site 338966005934 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966005935 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966005936 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966005937 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966005938 catalytic residues [active] 338966005939 catalytic nucleophile [active] 338966005940 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966005941 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966005942 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966005943 Synaptic Site I dimer interface [polypeptide binding]; other site 338966005944 DNA binding site [nucleotide binding] 338966005945 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 338966005946 DNA-binding interface [nucleotide binding]; DNA binding site 338966005947 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966005948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966005949 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 338966005950 Walker A/P-loop; other site 338966005951 ATP binding site [chemical binding]; other site 338966005952 Q-loop/lid; other site 338966005953 ABC transporter signature motif; other site 338966005954 Walker B; other site 338966005955 D-loop; other site 338966005956 H-loop/switch region; other site 338966005957 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966005958 FtsX-like permease family; Region: FtsX; cl15850 338966005959 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966005960 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 338966005961 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 338966005962 division inhibitor protein; Provisional; Region: slmA; PRK09480 338966005963 Helix-turn-helix domains; Region: HTH; cl00088 338966005964 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 338966005965 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 338966005966 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 338966005967 putative catalytic cysteine [active] 338966005968 Helix-turn-helix domains; Region: HTH; cl00088 338966005969 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 338966005970 putative dimerization interface [polypeptide binding]; other site 338966005971 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 338966005972 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 338966005973 substrate binding site [chemical binding]; other site 338966005974 ligand binding site [chemical binding]; other site 338966005975 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 338966005976 substrate binding site [chemical binding]; other site 338966005977 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966005978 trimerization site [polypeptide binding]; other site 338966005979 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 338966005980 active site 338966005981 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 338966005982 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 338966005983 dimerization interface [polypeptide binding]; other site 338966005984 putative DNA binding site [nucleotide binding]; other site 338966005985 putative Zn2+ binding site [ion binding]; other site 338966005986 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 338966005987 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 338966005988 tetramer interface [polypeptide binding]; other site 338966005989 heme binding pocket [chemical binding]; other site 338966005990 NADPH binding site [chemical binding]; other site 338966005991 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 338966005992 dinuclear metal binding motif [ion binding]; other site 338966005993 Membrane transport protein; Region: Mem_trans; cl09117 338966005994 CGGC domain; Region: CGGC; cl02356 338966005995 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966005996 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 338966005997 S-adenosylmethionine binding site [chemical binding]; other site 338966005998 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 338966005999 active site residue [active] 338966006000 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 338966006001 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 338966006002 FeS/SAM binding site; other site 338966006003 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966006004 Helix-turn-helix domains; Region: HTH; cl00088 338966006005 Helix-turn-helix domains; Region: HTH; cl00088 338966006006 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 338966006007 Protein export membrane protein; Region: SecD_SecF; cl14618 338966006008 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 338966006009 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966006010 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 338966006011 S-adenosylmethionine binding site [chemical binding]; other site 338966006012 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966006013 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 338966006014 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 338966006015 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966006016 trimerization site [polypeptide binding]; other site 338966006017 active site 338966006018 Uncharacterized conserved protein [Function unknown]; Region: COG2014 338966006019 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966006020 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966006021 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 338966006022 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 338966006023 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 338966006024 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 338966006025 P loop nucleotide binding; other site 338966006026 switch II; other site 338966006027 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966006028 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 338966006029 CoenzymeA binding site [chemical binding]; other site 338966006030 subunit interaction site [polypeptide binding]; other site 338966006031 PHB binding site; other site 338966006032 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 338966006033 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 338966006034 switch II; other site 338966006035 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 338966006036 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 338966006037 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 338966006038 Walker A/P-loop; other site 338966006039 ATP binding site [chemical binding]; other site 338966006040 Q-loop/lid; other site 338966006041 ABC transporter signature motif; other site 338966006042 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 338966006043 HSP70 interaction site [polypeptide binding]; other site 338966006044 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 338966006045 ZIP Zinc transporter; Region: Zip; pfam02535 338966006046 Cation efflux family; Region: Cation_efflux; cl00316 338966006047 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 338966006048 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 338966006049 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966006050 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 338966006051 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966006052 Rubrerythrin [Energy production and conversion]; Region: COG1592 338966006053 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338966006054 binuclear metal center [ion binding]; other site 338966006055 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 338966006056 iron binding site [ion binding]; other site 338966006057 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 338966006058 metal binding site 2 [ion binding]; metal-binding site 338966006059 putative DNA binding helix; other site 338966006060 metal binding site 1 [ion binding]; metal-binding site 338966006061 dimer interface [polypeptide binding]; other site 338966006062 structural Zn2+ binding site [ion binding]; other site 338966006063 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 338966006064 homodimer interaction site [polypeptide binding]; other site 338966006065 cofactor binding site; other site 338966006066 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; cl00399 338966006067 MoaE homodimer interface [polypeptide binding]; other site 338966006068 MoaD interaction [polypeptide binding]; other site 338966006069 active site residues [active] 338966006070 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 338966006071 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 338966006072 ligand binding site [chemical binding]; other site 338966006073 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 338966006074 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 338966006075 PAS domain; Region: PAS_9; pfam13426 338966006076 putative active site [active] 338966006077 heme pocket [chemical binding]; other site 338966006078 PAS domain S-box; Region: sensory_box; TIGR00229 338966006079 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 338966006080 putative active site [active] 338966006081 heme pocket [chemical binding]; other site 338966006082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966006083 Histidine kinase; Region: HisKA_2; cl06527 338966006084 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 338966006085 ATP binding site [chemical binding]; other site 338966006086 Mg2+ binding site [ion binding]; other site 338966006087 G-X-G motif; other site 338966006088 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966006089 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 338966006090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966006091 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 338966006092 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 338966006093 active site residue [active] 338966006094 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 338966006095 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 338966006096 PAS domain; Region: PAS_9; pfam13426 338966006097 putative active site [active] 338966006098 heme pocket [chemical binding]; other site 338966006099 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 338966006100 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966006101 Walker A motif; other site 338966006102 ATP binding site [chemical binding]; other site 338966006103 Walker B motif; other site 338966006104 arginine finger; other site 338966006105 Helix-turn-helix domains; Region: HTH; cl00088 338966006106 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 338966006107 Sulphur transport; Region: Sulf_transp; cl01018 338966006108 TIP49 C-terminus; Region: TIP49; pfam06068 338966006109 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 338966006110 nucleoside/Zn binding site; other site 338966006111 dimer interface [polypeptide binding]; other site 338966006112 catalytic motif [active] 338966006113 YCII-related domain; Region: YCII; cl00999 338966006114 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 338966006115 dimerization interface [polypeptide binding]; other site 338966006116 putative DNA binding site [nucleotide binding]; other site 338966006117 putative Zn2+ binding site [ion binding]; other site 338966006118 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966006119 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 338966006120 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 338966006121 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966006122 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 338966006123 Walker A/P-loop; other site 338966006124 ATP binding site [chemical binding]; other site 338966006125 Q-loop/lid; other site 338966006126 ABC transporter signature motif; other site 338966006127 Walker B; other site 338966006128 D-loop; other site 338966006129 H-loop/switch region; other site 338966006130 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338966006131 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006132 FtsX-like permease family; Region: FtsX; cl15850 338966006133 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338966006134 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006135 FtsX-like permease family; Region: FtsX; cl15850 338966006136 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 338966006137 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966006138 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 338966006139 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 338966006140 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338966006141 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 338966006142 substrate binding pocket [chemical binding]; other site 338966006143 membrane-bound complex binding site; other site 338966006144 hinge residues; other site 338966006145 GAF domain; Region: GAF_2; pfam13185 338966006146 PAS domain S-box; Region: sensory_box; TIGR00229 338966006147 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 338966006148 putative active site [active] 338966006149 heme pocket [chemical binding]; other site 338966006150 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966006151 Sensory domain found in PocR; Region: PocR; pfam10114 338966006152 hypothetical protein; Provisional; Region: PRK13560 338966006153 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966006154 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 338966006155 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 338966006156 ATP binding site [chemical binding]; other site 338966006157 Mg2+ binding site [ion binding]; other site 338966006158 G-X-G motif; other site 338966006159 LysE type translocator; Region: LysE; cl00565 338966006160 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966006161 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966006162 diaminopimelate decarboxylase; Region: lysA; TIGR01048 338966006163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 338966006164 active site 338966006165 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966006166 substrate binding site [chemical binding]; other site 338966006167 catalytic residues [active] 338966006168 dimer interface [polypeptide binding]; other site 338966006169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006170 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 338966006171 putative FMN binding site [chemical binding]; other site 338966006172 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 338966006173 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 338966006174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006175 homodimer interface [polypeptide binding]; other site 338966006176 catalytic residue [active] 338966006177 EamA-like transporter family; Region: EamA; cl01037 338966006178 EamA-like transporter family; Region: EamA; cl01037 338966006179 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966006180 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966006181 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 338966006182 dimer interface [polypeptide binding]; other site 338966006183 active site 338966006184 metal binding site [ion binding]; metal-binding site 338966006185 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966006186 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 338966006187 active site 338966006188 phosphorylation site [posttranslational modification] 338966006189 intermolecular recognition site; other site 338966006190 dimerization interface [polypeptide binding]; other site 338966006191 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 338966006192 Walker A motif; other site 338966006193 ATP binding site [chemical binding]; other site 338966006194 Walker B motif; other site 338966006195 arginine finger; other site 338966006196 Helix-turn-helix domains; Region: HTH; cl00088 338966006197 PAS fold; Region: PAS_4; pfam08448 338966006198 PAS domain S-box; Region: sensory_box; TIGR00229 338966006199 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 338966006200 putative active site [active] 338966006201 heme pocket [chemical binding]; other site 338966006202 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338966006203 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 338966006204 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 338966006205 ATP binding site [chemical binding]; other site 338966006206 Mg2+ binding site [ion binding]; other site 338966006207 G-X-G motif; other site 338966006208 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966006209 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 338966006210 active site 338966006211 metal binding site [ion binding]; metal-binding site 338966006212 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 338966006213 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 338966006214 catalytic residues [active] 338966006215 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 338966006216 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338966006217 substrate binding pocket [chemical binding]; other site 338966006218 chain length determination region; other site 338966006219 substrate-Mg2+ binding site; other site 338966006220 catalytic residues [active] 338966006221 aspartate-rich region 1; other site 338966006222 active site lid residues [active] 338966006223 aspartate-rich region 2; other site 338966006224 Flagellin N-methylase; Region: FliB; cl00497 338966006225 Chemotaxis phosphatase CheX; Region: CheX; cl15816 338966006226 GMP synthase; Reviewed; Region: guaA; PRK00074 338966006227 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 338966006228 AMP/PPi binding site [chemical binding]; other site 338966006229 candidate oxyanion hole; other site 338966006230 catalytic triad [active] 338966006231 potential glutamine specificity residues [chemical binding]; other site 338966006232 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 338966006233 ATP Binding subdomain [chemical binding]; other site 338966006234 Ligand Binding sites [chemical binding]; other site 338966006235 Dimerization subdomain; other site 338966006236 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 338966006237 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 338966006238 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 338966006239 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 338966006240 active site 338966006241 photolyase PhrII; Region: phr2; TIGR00591 338966006242 DNA photolyase; Region: DNA_photolyase; pfam00875 338966006243 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 338966006244 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 338966006245 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 338966006246 dimer interface [polypeptide binding]; other site 338966006247 conserved gate region; other site 338966006248 putative PBP binding loops; other site 338966006249 ABC-ATPase subunit interface; other site 338966006250 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 338966006251 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 338966006252 dimer interface [polypeptide binding]; other site 338966006253 conserved gate region; other site 338966006254 putative PBP binding loops; other site 338966006255 ABC-ATPase subunit interface; other site 338966006256 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 338966006257 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 338966006258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966006259 catalytic residue [active] 338966006260 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 338966006261 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966006262 trimerization site [polypeptide binding]; other site 338966006263 active site 338966006264 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 338966006265 NifU-like domain; Region: NifU; cl00484 338966006266 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 338966006267 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 338966006268 active site 338966006269 substrate binding site [chemical binding]; other site 338966006270 metal binding site [ion binding]; metal-binding site 338966006271 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 338966006272 NMT1-like family; Region: NMT1_2; cl15260 338966006273 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966006274 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 338966006275 lipoyl attachment site [posttranslational modification]; other site 338966006276 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 338966006277 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966006278 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966006279 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 338966006280 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 338966006281 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 338966006282 carboxyltransferase (CT) interaction site; other site 338966006283 biotinylation site [posttranslational modification]; other site 338966006284 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 338966006285 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 338966006286 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 338966006287 active site 338966006288 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 338966006289 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 338966006290 active site 338966006291 dimer interface [polypeptide binding]; other site 338966006292 metal binding site [ion binding]; metal-binding site 338966006293 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 338966006294 Tetramer interface [polypeptide binding]; other site 338966006295 active site 338966006296 FMN-binding site [chemical binding]; other site 338966006297 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966006298 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966006299 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 338966006300 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006301 Walker A motif; other site 338966006302 ATP binding site [chemical binding]; other site 338966006303 Walker B motif; other site 338966006304 glycerate dehydrogenase; Provisional; Region: PRK06487 338966006305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006306 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 338966006307 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 338966006308 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966006309 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 338966006310 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 338966006311 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 338966006312 active site 338966006313 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 338966006314 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 338966006315 Transporter associated domain; Region: CorC_HlyC; cl08393 338966006316 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 338966006317 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 338966006318 putative active site [active] 338966006319 catalytic triad [active] 338966006320 putative dimer interface [polypeptide binding]; other site 338966006321 peptide chain release factor 2; Validated; Region: prfB; PRK00578 338966006322 RF-1 domain; Region: RF-1; cl02875 338966006323 RF-1 domain; Region: RF-1; cl02875 338966006324 Sporulation related domain; Region: SPOR; cl10051 338966006325 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338966006326 NlpC/P60 family; Region: NLPC_P60; cl11438 338966006327 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 338966006328 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 338966006329 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 338966006330 rRNA interaction site [nucleotide binding]; other site 338966006331 S8 interaction site; other site 338966006332 putative laminin-1 binding site; other site 338966006333 elongation factor Ts; Provisional; Region: tsf; PRK09377 338966006334 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 338966006335 Elongation factor TS; Region: EF_TS; pfam00889 338966006336 Elongation factor TS; Region: EF_TS; pfam00889 338966006337 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 338966006338 putative nucleotide binding site [chemical binding]; other site 338966006339 uridine monophosphate binding site [chemical binding]; other site 338966006340 homohexameric interface [polypeptide binding]; other site 338966006341 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 338966006342 hinge region; other site 338966006343 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 338966006344 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 338966006345 catalytic residue [active] 338966006346 putative FPP diphosphate binding site; other site 338966006347 putative FPP binding hydrophobic cleft; other site 338966006348 dimer interface [polypeptide binding]; other site 338966006349 putative IPP diphosphate binding site; other site 338966006350 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 338966006351 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 338966006352 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 338966006353 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 338966006354 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 338966006355 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 338966006356 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 338966006357 active site 338966006358 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 338966006359 protein binding site [polypeptide binding]; other site 338966006360 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 338966006361 putative substrate binding region [chemical binding]; other site 338966006362 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 338966006363 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966006364 active site 338966006365 NTP binding site [chemical binding]; other site 338966006366 metal binding triad [ion binding]; metal-binding site 338966006367 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338966006368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966006369 ABC-2 type transporter; Region: ABC2_membrane; cl11417 338966006370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006371 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 338966006372 Walker A/P-loop; other site 338966006373 ATP binding site [chemical binding]; other site 338966006374 Q-loop/lid; other site 338966006375 ABC transporter signature motif; other site 338966006376 Walker B; other site 338966006377 D-loop; other site 338966006378 H-loop/switch region; other site 338966006379 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 338966006380 octamerization interface [polypeptide binding]; other site 338966006381 diferric-oxygen binding site [ion binding]; other site 338966006382 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966006383 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 338966006384 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 338966006385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006386 hypothetical protein; Provisional; Region: PRK13560 338966006387 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966006388 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 338966006389 putative active site [active] 338966006390 heme pocket [chemical binding]; other site 338966006391 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 338966006392 dimer interface [polypeptide binding]; other site 338966006393 phosphorylation site [posttranslational modification] 338966006394 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 338966006395 ATP binding site [chemical binding]; other site 338966006396 Mg2+ binding site [ion binding]; other site 338966006397 G-X-G motif; other site 338966006398 Response regulator receiver domain; Region: Response_reg; pfam00072 338966006399 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 338966006400 active site 338966006401 phosphorylation site [posttranslational modification] 338966006402 intermolecular recognition site; other site 338966006403 dimerization interface [polypeptide binding]; other site 338966006404 Response regulator receiver domain; Region: Response_reg; pfam00072 338966006405 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 338966006406 active site 338966006407 phosphorylation site [posttranslational modification] 338966006408 intermolecular recognition site; other site 338966006409 dimerization interface [polypeptide binding]; other site 338966006410 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 338966006411 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 338966006412 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 338966006413 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966006414 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 338966006415 active site 338966006416 ATP binding site [chemical binding]; other site 338966006417 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 338966006418 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 338966006419 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 338966006420 generic binding surface II; other site 338966006421 generic binding surface I; other site 338966006422 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 338966006423 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966006424 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338966006425 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 338966006426 RNA binding surface [nucleotide binding]; other site 338966006427 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 338966006428 active site 338966006429 Protein of unknown function DUF262; Region: DUF262; cl14890 338966006430 Protein of unknown function DUF262; Region: DUF262; cl14890 338966006431 Protein of unknown function DUF262; Region: DUF262; cl14890 338966006432 PIF1-like helicase; Region: PIF1; pfam05970 338966006433 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006434 Family description; Region: UvrD_C_2; cl15862 338966006435 GTPase RsgA; Reviewed; Region: PRK00098 338966006436 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 338966006437 GTPase/Zn-binding domain interface [polypeptide binding]; other site 338966006438 GTP/Mg2+ binding site [chemical binding]; other site 338966006439 G4 box; other site 338966006440 G5 box; other site 338966006441 G1 box; other site 338966006442 Switch I region; other site 338966006443 G2 box; other site 338966006444 G3 box; other site 338966006445 Switch II region; other site 338966006446 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966006447 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966006448 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966006449 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 338966006450 N-terminal plug; other site 338966006451 ligand-binding site [chemical binding]; other site 338966006452 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 338966006453 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 338966006454 intersubunit interface [polypeptide binding]; other site 338966006455 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 338966006456 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 338966006457 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 338966006458 ABC-ATPase subunit interface; other site 338966006459 dimer interface [polypeptide binding]; other site 338966006460 putative PBP binding regions; other site 338966006461 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966006462 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 338966006463 Walker A/P-loop; other site 338966006464 ATP binding site [chemical binding]; other site 338966006465 Q-loop/lid; other site 338966006466 ABC transporter signature motif; other site 338966006467 Walker B; other site 338966006468 D-loop; other site 338966006469 H-loop/switch region; other site 338966006470 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966006471 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966006472 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966006473 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 338966006474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006475 Walker A motif; other site 338966006476 ATP binding site [chemical binding]; other site 338966006477 Walker B motif; other site 338966006478 arginine finger; other site 338966006479 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 338966006480 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 338966006481 ATP binding site [chemical binding]; other site 338966006482 Walker B motif; other site 338966006483 arginine finger; other site 338966006484 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 338966006485 metal ion-dependent adhesion site (MIDAS); other site 338966006486 Fibronectin type III-like domain; Region: Fn3-like; cl15273 338966006487 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 338966006488 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 338966006489 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 338966006490 Sensory domain found in PocR; Region: PocR; pfam10114 338966006491 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966006492 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 338966006493 PAS fold; Region: PAS_3; pfam08447 338966006494 putative active site [active] 338966006495 heme pocket [chemical binding]; other site 338966006496 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966006497 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 338966006498 putative active site [active] 338966006499 heme pocket [chemical binding]; other site 338966006500 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 338966006501 dimer interface [polypeptide binding]; other site 338966006502 phosphorylation site [posttranslational modification] 338966006503 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 338966006504 ATP binding site [chemical binding]; other site 338966006505 Mg2+ binding site [ion binding]; other site 338966006506 G-X-G motif; other site 338966006507 Response regulator receiver domain; Region: Response_reg; pfam00072 338966006508 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 338966006509 active site 338966006510 phosphorylation site [posttranslational modification] 338966006511 intermolecular recognition site; other site 338966006512 dimerization interface [polypeptide binding]; other site 338966006513 nickel responsive regulator; Provisional; Region: PRK04460 338966006514 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 338966006515 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 338966006516 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 338966006517 S-adenosylmethionine binding site [chemical binding]; other site 338966006518 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 338966006519 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 338966006520 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 338966006521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966006522 catalytic residue [active] 338966006523 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 338966006524 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 338966006525 Substrate binding site; other site 338966006526 Cupin domain; Region: Cupin_2; cl09118 338966006527 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966006528 Cupin domain; Region: Cupin_2; cl09118 338966006529 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 338966006530 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 338966006531 NADP binding site [chemical binding]; other site 338966006532 active site 338966006533 putative substrate binding site [chemical binding]; other site 338966006534 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 338966006535 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 338966006536 NAD binding site [chemical binding]; other site 338966006537 substrate binding site [chemical binding]; other site 338966006538 homodimer interface [polypeptide binding]; other site 338966006539 active site 338966006540 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 338966006541 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966006542 catalytic residue [active] 338966006543 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966006544 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 338966006545 putative active site [active] 338966006546 hypothetical protein; Provisional; Region: PRK07208 338966006547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006548 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966006549 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966006550 Probable Catalytic site; other site 338966006551 metal-binding site 338966006552 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966006553 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 338966006554 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966006555 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966006556 Probable Catalytic site; other site 338966006557 metal-binding site 338966006558 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 338966006559 putative ligand binding site [chemical binding]; other site 338966006560 putative catalytic site [active] 338966006561 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 338966006562 S-adenosylmethionine binding site [chemical binding]; other site 338966006563 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 338966006564 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 338966006565 Walker A/P-loop; other site 338966006566 ATP binding site [chemical binding]; other site 338966006567 Q-loop/lid; other site 338966006568 ABC transporter signature motif; other site 338966006569 Walker B; other site 338966006570 D-loop; other site 338966006571 H-loop/switch region; other site 338966006572 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 338966006573 putative carbohydrate binding site [chemical binding]; other site 338966006574 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 338966006575 ABC-2 type transporter; Region: ABC2_membrane; cl11417 338966006576 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966006577 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 338966006578 active site 338966006579 UbiA prenyltransferase family; Region: UbiA; cl00337 338966006580 HDOD domain; Region: HDOD; pfam08668 338966006581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966006582 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 338966006583 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 338966006584 Walker A motif; other site 338966006585 ATP binding site [chemical binding]; other site 338966006586 Walker B motif; other site 338966006587 arginine finger; other site 338966006588 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 338966006589 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 338966006590 trimer interface [polypeptide binding]; other site 338966006591 active site 338966006592 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966006593 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966006594 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966006595 Cupin domain; Region: Cupin_2; cl09118 338966006596 DJ-1 family protein; Region: not_thiJ; TIGR01383 338966006597 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 338966006598 conserved cys residue [active] 338966006599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966006600 Zn2+ binding site [ion binding]; other site 338966006601 Mg2+ binding site [ion binding]; other site 338966006602 Transposase domain (DUF772); Region: DUF772; pfam05598 338966006603 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966006604 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966006605 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966006606 Integrase core domain; Region: rve; cl01316 338966006607 Integrase core domain; Region: rve_3; cl15866 338966006608 AAA domain; Region: AAA_25; pfam13481 338966006609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006610 Walker A motif; other site 338966006611 ATP binding site [chemical binding]; other site 338966006612 Walker B motif; other site 338966006613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 338966006614 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 338966006615 active site 338966006616 metal binding site [ion binding]; metal-binding site 338966006617 interdomain interaction site; other site 338966006618 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 338966006619 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 338966006620 non-specific DNA binding site [nucleotide binding]; other site 338966006621 salt bridge; other site 338966006622 sequence-specific DNA binding site [nucleotide binding]; other site 338966006623 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966006624 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 338966006625 active site 338966006626 DNA binding site [nucleotide binding] 338966006627 Int/Topo IB signature motif; other site 338966006628 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 338966006629 ABC-ATPase subunit interface; other site 338966006630 dimer interface [polypeptide binding]; other site 338966006631 putative PBP binding regions; other site 338966006632 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 338966006633 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 338966006634 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 338966006635 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 338966006636 metal binding site [ion binding]; metal-binding site 338966006637 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 338966006638 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 338966006639 hypothetical protein; Reviewed; Region: PRK09588 338966006640 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 338966006641 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 338966006642 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 338966006643 tetrameric interface [polypeptide binding]; other site 338966006644 activator binding site; other site 338966006645 NADP binding site [chemical binding]; other site 338966006646 substrate binding site [chemical binding]; other site 338966006647 catalytic residues [active] 338966006648 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 338966006649 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 338966006650 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 338966006651 GTP/Mg2+ binding site [chemical binding]; other site 338966006652 G4 box; other site 338966006653 G5 box; other site 338966006654 G1 box; other site 338966006655 Switch I region; other site 338966006656 G2 box; other site 338966006657 G3 box; other site 338966006658 Switch II region; other site 338966006659 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966006660 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 338966006661 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 338966006662 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 338966006663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006664 Family description; Region: UvrD_C_2; cl15862 338966006665 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 338966006666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966006667 Family description; Region: UvrD_C_2; cl15862 338966006668 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966006669 diiron binding motif [ion binding]; other site 338966006670 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 338966006671 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966006672 dimer interface [polypeptide binding]; other site 338966006673 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966006674 putative CheW interface [polypeptide binding]; other site 338966006675 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338966006676 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 338966006677 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966006678 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 338966006679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 338966006680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006681 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 338966006682 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 338966006683 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 338966006684 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966006685 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 338966006686 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966006687 Herpes virus major outer envelope glycoprotein (BLLF1); Region: Herpes_BLLF1; pfam05109 338966006688 Carbon starvation protein CstA; Region: CstA; pfam02554 338966006689 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 338966006690 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 338966006691 domain_subunit interface; other site 338966006692 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 338966006693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006695 4Fe-4S binding domain; Region: Fer4; cl02805 338966006696 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966006697 4Fe-4S binding domain; Region: Fer4; cl02805 338966006698 4Fe-4S binding domain; Region: Fer4; cl02805 338966006699 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 338966006700 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 338966006701 active site 338966006702 FMN binding site [chemical binding]; other site 338966006703 substrate binding site [chemical binding]; other site 338966006704 3Fe-4S cluster binding site [ion binding]; other site 338966006705 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 338966006706 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 338966006707 putative active site [active] 338966006708 NAD synthetase; Reviewed; Region: nadE; PRK02628 338966006709 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 338966006710 multimer interface [polypeptide binding]; other site 338966006711 active site 338966006712 catalytic triad [active] 338966006713 protein interface 1 [polypeptide binding]; other site 338966006714 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 338966006715 homodimer interface [polypeptide binding]; other site 338966006716 NAD binding pocket [chemical binding]; other site 338966006717 ATP binding pocket [chemical binding]; other site 338966006718 Mg binding site [ion binding]; other site 338966006719 active-site loop [active] 338966006720 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 338966006721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006722 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 338966006723 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 338966006724 tetramer interface [polypeptide binding]; other site 338966006725 active site 338966006726 Mg2+/Mn2+ binding site [ion binding]; other site 338966006727 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 338966006728 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966006729 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 338966006730 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966006731 Ycf46; Provisional; Region: ycf46; CHL00195 338966006732 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 338966006733 Walker A motif; other site 338966006734 ATP binding site [chemical binding]; other site 338966006735 Walker B motif; other site 338966006736 arginine finger; other site 338966006737 elongation factor G; Reviewed; Region: PRK13351 338966006738 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 338966006739 G1 box; other site 338966006740 putative GEF interaction site [polypeptide binding]; other site 338966006741 GTP/Mg2+ binding site [chemical binding]; other site 338966006742 Switch I region; other site 338966006743 G2 box; other site 338966006744 G3 box; other site 338966006745 Switch II region; other site 338966006746 G4 box; other site 338966006747 G5 box; other site 338966006748 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 338966006749 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 338966006750 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 338966006751 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966006752 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 338966006753 Walker A motif; other site 338966006754 ATP binding site [chemical binding]; other site 338966006755 Walker B motif; other site 338966006756 arginine finger; other site 338966006757 Helix-turn-helix domains; Region: HTH; cl00088 338966006758 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966006759 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 338966006760 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39G; cd02423 338966006761 putative active site [active] 338966006762 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 338966006763 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 338966006764 Helix-turn-helix domains; Region: HTH; cl00088 338966006765 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 338966006766 putative dimerization interface [polypeptide binding]; other site 338966006767 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 338966006768 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 338966006769 Peptidase family M48; Region: Peptidase_M48; cl12018 338966006770 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 338966006771 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 338966006772 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 338966006773 Walker A/P-loop; other site 338966006774 ATP binding site [chemical binding]; other site 338966006775 Q-loop/lid; other site 338966006776 ABC transporter signature motif; other site 338966006777 Walker B; other site 338966006778 D-loop; other site 338966006779 H-loop/switch region; other site 338966006780 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338966006781 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 338966006782 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 338966006783 Walker A/P-loop; other site 338966006784 ATP binding site [chemical binding]; other site 338966006785 Q-loop/lid; other site 338966006786 ABC transporter signature motif; other site 338966006787 Walker B; other site 338966006788 D-loop; other site 338966006789 H-loop/switch region; other site 338966006790 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338966006791 Rhomboid family; Region: Rhomboid; cl11446 338966006792 PilZ domain; Region: PilZ; cl01260 338966006793 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 338966006794 aspartate aminotransferase; Provisional; Region: PRK05764 338966006795 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 338966006796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006797 homodimer interface [polypeptide binding]; other site 338966006798 catalytic residue [active] 338966006799 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 338966006800 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 338966006801 active site 338966006802 (T/H)XGH motif; other site 338966006803 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966006804 TPR repeat; Region: TPR_11; pfam13414 338966006805 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 338966006806 binding surface 338966006807 TPR motif; other site 338966006808 TPR repeat; Region: TPR_11; pfam13414 338966006809 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 338966006810 homodimer interaction site [polypeptide binding]; other site 338966006811 cofactor binding site; other site 338966006812 rod shape-determining protein MreC; Provisional; Region: PRK13922 338966006813 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338966006814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006815 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 338966006816 Fasciclin domain; Region: Fasciclin; cl02663 338966006817 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 338966006818 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 338966006819 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 338966006820 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 338966006821 Protein export membrane protein; Region: SecD_SecF; cl14618 338966006822 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 338966006823 Protein export membrane protein; Region: SecD_SecF; cl14618 338966006824 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966006825 H+ Antiporter protein; Region: 2A0121; TIGR00900 338966006826 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 338966006827 putative substrate translocation pore; other site 338966006828 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 338966006829 Sulfate transporter family; Region: Sulfate_transp; cl15842 338966006830 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966006831 Sulfate transporter family; Region: Sulfate_transp; cl15842 338966006832 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 338966006833 Flavin Reductases; Region: FlaRed; cl00801 338966006834 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 338966006835 Leucine carboxyl methyltransferase; Region: LCM; cl01306 338966006836 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966006837 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966006838 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 338966006839 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338966006840 NADP binding site [chemical binding]; other site 338966006841 dimer interface [polypeptide binding]; other site 338966006842 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966006843 Helix-turn-helix domains; Region: HTH; cl00088 338966006844 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 338966006845 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 338966006846 Ca2+ binding site [ion binding]; other site 338966006847 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966006848 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 338966006849 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 338966006850 Walker A/P-loop; other site 338966006851 ATP binding site [chemical binding]; other site 338966006852 Q-loop/lid; other site 338966006853 ABC transporter signature motif; other site 338966006854 Walker B; other site 338966006855 D-loop; other site 338966006856 H-loop/switch region; other site 338966006857 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006858 FtsX-like permease family; Region: FtsX; cl15850 338966006859 macrolide transporter subunit MacA; Provisional; Region: PRK11578 338966006860 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 338966006861 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 338966006862 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 338966006863 protein binding site [polypeptide binding]; other site 338966006864 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966006865 dimer interface [polypeptide binding]; other site 338966006866 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 338966006867 Ca2+ binding site [ion binding]; other site 338966006868 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966006869 dimer interface [polypeptide binding]; other site 338966006870 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 338966006871 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 338966006872 dimerization interface [polypeptide binding]; other site 338966006873 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 338966006874 dimer interface [polypeptide binding]; other site 338966006875 phosphorylation site [posttranslational modification] 338966006876 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 338966006877 ATP binding site [chemical binding]; other site 338966006878 Mg2+ binding site [ion binding]; other site 338966006879 G-X-G motif; other site 338966006880 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 338966006881 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 338966006882 active site 338966006883 phosphorylation site [posttranslational modification] 338966006884 intermolecular recognition site; other site 338966006885 dimerization interface [polypeptide binding]; other site 338966006886 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 338966006887 DNA binding site [nucleotide binding] 338966006888 hypothetical protein; Provisional; Region: PRK13795 338966006889 4Fe-4S binding domain; Region: Fer4; cl02805 338966006890 Acetokinase family; Region: Acetate_kinase; cl01029 338966006891 acetate kinase; Region: ackA; TIGR00016 338966006892 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966006893 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 338966006894 TPR motif; other site 338966006895 TPR repeat; Region: TPR_11; pfam13414 338966006896 binding surface 338966006897 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 338966006898 binding surface 338966006899 TPR motif; other site 338966006900 TPR repeat; Region: TPR_11; pfam13414 338966006901 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 338966006902 GAF domain; Region: GAF; cl15785 338966006903 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 338966006904 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 338966006905 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 338966006906 Protein of unknown function (DUF342); Region: DUF342; pfam03961 338966006907 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 338966006908 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966006909 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 338966006910 Walker A motif; other site 338966006911 ATP binding site [chemical binding]; other site 338966006912 Walker B motif; other site 338966006913 arginine finger; other site 338966006914 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 338966006915 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 338966006916 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 338966006917 lipoyl synthase; Provisional; Region: PRK05481 338966006918 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 338966006919 FeS/SAM binding site; other site 338966006920 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 338966006921 homodimer interface [polypeptide binding]; other site 338966006922 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 338966006923 active site pocket [active] 338966006924 Transposase domain (DUF772); Region: DUF772; pfam05598 338966006925 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966006926 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966006927 recombination factor protein RarA; Reviewed; Region: PRK13342 338966006928 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 338966006929 Walker A motif; other site 338966006930 ATP binding site [chemical binding]; other site 338966006931 Walker B motif; other site 338966006932 arginine finger; other site 338966006933 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 338966006934 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 338966006935 putative hydrophobic ligand binding site [chemical binding]; other site 338966006936 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 338966006937 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 338966006938 Membrane protein of unknown function; Region: DUF360; cl00850 338966006939 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 338966006940 Ligand Binding Site [chemical binding]; other site 338966006941 B3/4 domain; Region: B3_4; cl11458 338966006942 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 338966006943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006944 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 338966006945 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 338966006946 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 338966006947 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 338966006948 putative active site [active] 338966006949 FtsH Extracellular; Region: FtsH_ext; pfam06480 338966006950 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338966006951 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 338966006952 Walker A motif; other site 338966006953 ATP binding site [chemical binding]; other site 338966006954 Walker B motif; other site 338966006955 arginine finger; other site 338966006956 Peptidase family M41; Region: Peptidase_M41; pfam01434 338966006957 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 338966006958 dihydropteroate synthase; Region: DHPS; TIGR01496 338966006959 substrate binding pocket [chemical binding]; other site 338966006960 dimer interface [polypeptide binding]; other site 338966006961 inhibitor binding site; inhibition site 338966006962 Uncharacterized conserved protein [Function unknown]; Region: COG1624 338966006963 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 338966006964 YbbR-like protein; Region: YbbR; pfam07949 338966006965 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 338966006966 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 338966006967 active site 338966006968 substrate binding site [chemical binding]; other site 338966006969 metal binding site [ion binding]; metal-binding site 338966006970 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 338966006971 active site 338966006972 hydrophilic channel; other site 338966006973 dimerization interface [polypeptide binding]; other site 338966006974 catalytic residues [active] 338966006975 active site lid [active] 338966006976 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 338966006977 putative carbohydrate kinase; Provisional; Region: PRK10565 338966006978 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 338966006979 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 338966006980 putative substrate binding site [chemical binding]; other site 338966006981 putative ATP binding site [chemical binding]; other site 338966006982 FOG: CBS domain [General function prediction only]; Region: COG0517 338966006983 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 338966006984 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 338966006985 aspartate kinase; Reviewed; Region: PRK06635 338966006986 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 338966006987 putative nucleotide binding site [chemical binding]; other site 338966006988 putative catalytic residues [active] 338966006989 putative Mg ion binding site [ion binding]; other site 338966006990 putative aspartate binding site [chemical binding]; other site 338966006991 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 338966006992 putative allosteric regulatory site; other site 338966006993 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 338966006994 putative allosteric regulatory residue; other site 338966006995 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 338966006996 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 338966006997 nucleoside/Zn binding site; other site 338966006998 dimer interface [polypeptide binding]; other site 338966006999 catalytic motif [active] 338966007000 BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure; Region: KU; cd00109 338966007001 trypsin interaction site; other site 338966007002 Integrase core domain; Region: rve; cl01316 338966007003 Integrase core domain; Region: rve_3; cl15866 338966007004 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966007005 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966007006 MPN+ (JAMM) motif; other site 338966007007 Zinc-binding site [ion binding]; other site 338966007008 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; cl00257 338966007009 IHF dimer interface [polypeptide binding]; other site 338966007010 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 338966007011 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 338966007012 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966007013 TIGR02687 family protein; Region: TIGR02687 338966007014 PglZ domain; Region: PglZ; pfam08665 338966007015 Fic/DOC family; Region: Fic; cl00960 338966007016 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966007017 synthetase active site [active] 338966007018 NTP binding site [chemical binding]; other site 338966007019 metal binding site [ion binding]; metal-binding site 338966007020 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966007021 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 338966007022 P-loop; other site 338966007023 Magnesium ion binding site [ion binding]; other site 338966007024 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 338966007025 Magnesium ion binding site [ion binding]; other site 338966007026 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 338966007027 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966007028 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966007029 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 338966007030 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 338966007031 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 338966007032 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 338966007033 integrase; Provisional; Region: PRK09692 338966007034 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 338966007035 active site 338966007036 Int/Topo IB signature motif; other site 338966007037 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966007038 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 338966007039 DNA binding residues [nucleotide binding] 338966007040 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 338966007041 IHF dimer interface [polypeptide binding]; other site 338966007042 IHF - DNA interface [nucleotide binding]; other site 338966007043 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 338966007044 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 338966007045 putative tRNA-binding site [nucleotide binding]; other site 338966007046 B3/4 domain; Region: B3_4; cl11458 338966007047 tRNA synthetase B5 domain; Region: B5; cl08394 338966007048 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 338966007049 dimer interface [polypeptide binding]; other site 338966007050 motif 1; other site 338966007051 motif 3; other site 338966007052 motif 2; other site 338966007053 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 338966007054 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 338966007055 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 338966007056 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 338966007057 dimer interface [polypeptide binding]; other site 338966007058 motif 1; other site 338966007059 active site 338966007060 motif 2; other site 338966007061 motif 3; other site 338966007062 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 338966007063 23S rRNA binding site [nucleotide binding]; other site 338966007064 L21 binding site [polypeptide binding]; other site 338966007065 L13 binding site [polypeptide binding]; other site 338966007066 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 338966007067 translation initiation factor IF-3; Region: infC; TIGR00168 338966007068 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 338966007069 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 338966007070 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 338966007071 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 338966007072 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 338966007073 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 338966007074 active site 338966007075 dimer interface [polypeptide binding]; other site 338966007076 motif 1; other site 338966007077 motif 2; other site 338966007078 motif 3; other site 338966007079 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 338966007080 anticodon binding site; other site 338966007081 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 338966007082 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966007083 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 338966007084 active site 338966007085 dimerization interface [polypeptide binding]; other site 338966007086 ribonuclease PH; Reviewed; Region: rph; PRK00173 338966007087 Ribonuclease PH; Region: RNase_PH_bact; cd11362 338966007088 hexamer interface [polypeptide binding]; other site 338966007089 active site 338966007090 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338966007091 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 338966007092 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 338966007093 active site 338966007094 catalytic residues [active] 338966007095 metal binding site [ion binding]; metal-binding site 338966007096 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 338966007097 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007098 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007099 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007100 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007101 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 338966007102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 338966007103 MatE; Region: MatE; cl10513 338966007104 putative efflux protein, MATE family; Region: matE; TIGR00797 338966007105 MatE; Region: MatE; cl10513 338966007106 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966007107 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 338966007108 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 338966007109 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966007110 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 338966007111 DNA binding residues [nucleotide binding] 338966007112 dimerization interface [polypeptide binding]; other site 338966007113 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 338966007114 HSP70 interaction site [polypeptide binding]; other site 338966007115 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 338966007116 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 338966007117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007118 Walker A motif; other site 338966007119 ATP binding site [chemical binding]; other site 338966007120 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 338966007121 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 338966007122 Walker A motif; other site 338966007123 ATP binding site [chemical binding]; other site 338966007124 Walker B motif; other site 338966007125 arginine finger; other site 338966007126 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 338966007127 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 338966007128 Sporulation related domain; Region: SPOR; cl10051 338966007129 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 338966007130 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966007131 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 338966007132 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 338966007133 TPP-binding site [chemical binding]; other site 338966007134 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 338966007135 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 338966007136 dimer interface [polypeptide binding]; other site 338966007137 PYR/PP interface [polypeptide binding]; other site 338966007138 TPP binding site [chemical binding]; other site 338966007139 substrate binding site [chemical binding]; other site 338966007140 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 338966007141 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966007142 malate dehydrogenase; Reviewed; Region: PRK06223 338966007143 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 338966007144 NAD(P) binding site [chemical binding]; other site 338966007145 dimer interface [polypeptide binding]; other site 338966007146 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966007147 substrate binding site [chemical binding]; other site 338966007148 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 338966007149 putative peptidoglycan binding site; other site 338966007150 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 338966007151 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 338966007152 dimer interface [polypeptide binding]; other site 338966007153 anticodon binding site; other site 338966007154 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 338966007155 homodimer interface [polypeptide binding]; other site 338966007156 motif 1; other site 338966007157 active site 338966007158 motif 2; other site 338966007159 GAD domain; Region: GAD; pfam02938 338966007160 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 338966007161 motif 3; other site 338966007162 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 338966007163 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 338966007164 Catalytic site [active] 338966007165 GTP-binding protein LepA; Provisional; Region: PRK05433 338966007166 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 338966007167 G1 box; other site 338966007168 putative GEF interaction site [polypeptide binding]; other site 338966007169 GTP/Mg2+ binding site [chemical binding]; other site 338966007170 Switch I region; other site 338966007171 G2 box; other site 338966007172 G3 box; other site 338966007173 Switch II region; other site 338966007174 G4 box; other site 338966007175 G5 box; other site 338966007176 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 338966007177 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 338966007178 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 338966007179 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 338966007180 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 338966007181 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 338966007182 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 338966007183 S-adenosylmethionine binding site [chemical binding]; other site 338966007184 Protein of unknown function, DUF479; Region: DUF479; cl01203 338966007185 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966007186 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 338966007187 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 338966007188 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 338966007189 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 338966007190 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 338966007191 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 338966007192 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 338966007193 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 338966007194 helicase Cas3; Provisional; Region: PRK09694 338966007195 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 338966007196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007197 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 338966007198 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966007199 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338966007200 active site 338966007201 catalytic site [active] 338966007202 substrate binding site [chemical binding]; other site 338966007203 AAA domain; Region: AAA_32; pfam13654 338966007204 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966007205 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 338966007206 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 338966007207 ATP binding site [chemical binding]; other site 338966007208 putative Mg++ binding site [ion binding]; other site 338966007209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007210 Helicase associated domain (HA2); Region: HA2; cl04503 338966007211 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 338966007212 Chorismate mutase type II; Region: CM_2; cl00693 338966007213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966007214 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 338966007215 Coenzyme A binding pocket [chemical binding]; other site 338966007216 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 338966007217 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 338966007218 NAD binding site [chemical binding]; other site 338966007219 catalytic residues [active] 338966007220 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 338966007221 FMN binding site [chemical binding]; other site 338966007222 dimer interface [polypeptide binding]; other site 338966007223 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 338966007224 THUMP domain; Region: THUMP; cl12076 338966007225 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966007226 dephospho-CoA kinase; Region: TIGR00152 338966007227 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 338966007228 CoA-binding site [chemical binding]; other site 338966007229 ATP-binding [chemical binding]; other site 338966007230 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 338966007231 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966007232 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966007233 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 338966007234 putative active site [active] 338966007235 heme pocket [chemical binding]; other site 338966007236 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 338966007237 dimer interface [polypeptide binding]; other site 338966007238 phosphorylation site [posttranslational modification] 338966007239 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 338966007240 ATP binding site [chemical binding]; other site 338966007241 Mg2+ binding site [ion binding]; other site 338966007242 G-X-G motif; other site 338966007243 Response regulator receiver domain; Region: Response_reg; pfam00072 338966007244 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 338966007245 active site 338966007246 phosphorylation site [posttranslational modification] 338966007247 intermolecular recognition site; other site 338966007248 dimerization interface [polypeptide binding]; other site 338966007249 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 338966007250 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 338966007251 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 338966007252 shikimate binding site; other site 338966007253 NAD(P) binding site [chemical binding]; other site 338966007254 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 338966007255 trimer interface [polypeptide binding]; other site 338966007256 active site 338966007257 dimer interface [polypeptide binding]; other site 338966007258 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 338966007259 Shikimate kinase; Region: SKI; pfam01202 338966007260 ADP binding site [chemical binding]; other site 338966007261 magnesium binding site [ion binding]; other site 338966007262 putative shikimate binding site; other site 338966007263 CheD chemotactic sensory transduction; Region: CheD; cl00810 338966007264 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338966007265 Response regulator receiver domain; Region: Response_reg; pfam00072 338966007266 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 338966007267 active site 338966007268 phosphorylation site [posttranslational modification] 338966007269 intermolecular recognition site; other site 338966007270 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 338966007271 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 338966007272 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966007273 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 338966007274 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 338966007275 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 338966007276 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 338966007277 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 338966007278 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 338966007279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007280 Walker A/P-loop; other site 338966007281 ATP binding site [chemical binding]; other site 338966007282 Q-loop/lid; other site 338966007283 ABC transporter signature motif; other site 338966007284 Walker B; other site 338966007285 D-loop; other site 338966007286 H-loop/switch region; other site 338966007287 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007288 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007289 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007290 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007291 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007292 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007293 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007294 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007295 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007296 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007297 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007298 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007299 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007300 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007301 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 338966007302 Cadherin repeat-like domain; Region: CA_like; cl15786 338966007303 Ca2+ binding site [ion binding]; other site 338966007304 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 338966007305 Cadherin repeat-like domain; Region: CA_like; cl15786 338966007306 Ca2+ binding site [ion binding]; other site 338966007307 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007308 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 338966007309 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 338966007310 nucleophilic elbow; other site 338966007311 catalytic triad; other site 338966007312 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 338966007313 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 338966007314 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966007315 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 338966007316 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 338966007317 active site 338966007318 Int/Topo IB signature motif; other site 338966007319 DNA binding site [nucleotide binding] 338966007320 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 338966007321 AAA domain; Region: AAA_22; pfam13401 338966007322 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 338966007323 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 338966007324 Catalytic site [active] 338966007325 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 338966007326 Mor transcription activator family; Region: Mor; cl02360 338966007327 Mor transcription activator family; Region: Mor; cl02360 338966007328 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 338966007329 Mu-like prophage I protein [General function prediction only]; Region: COG4388 338966007330 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 338966007331 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 338966007332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966007333 catalytic residue [active] 338966007334 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 338966007335 putative active site [active] 338966007336 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 338966007337 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 338966007338 homotrimer interaction site [polypeptide binding]; other site 338966007339 putative active site [active] 338966007340 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 338966007341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966007342 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966007343 synthetase active site [active] 338966007344 NTP binding site [chemical binding]; other site 338966007345 metal binding site [ion binding]; metal-binding site 338966007346 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 338966007347 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 338966007348 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 338966007349 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 338966007350 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 338966007351 catalytic site [active] 338966007352 G-X2-G-X-G-K; other site 338966007353 hypothetical protein; Provisional; Region: PRK11820 338966007354 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 338966007355 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 338966007356 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 338966007357 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 338966007358 TPP-binding site; other site 338966007359 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 338966007360 PYR/PP interface [polypeptide binding]; other site 338966007361 dimer interface [polypeptide binding]; other site 338966007362 TPP binding site [chemical binding]; other site 338966007363 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966007364 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 338966007365 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338966007366 substrate binding pocket [chemical binding]; other site 338966007367 chain length determination region; other site 338966007368 substrate-Mg2+ binding site; other site 338966007369 catalytic residues [active] 338966007370 aspartate-rich region 1; other site 338966007371 active site lid residues [active] 338966007372 aspartate-rich region 2; other site 338966007373 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 338966007374 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338966007375 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 338966007376 generic binding surface II; other site 338966007377 generic binding surface I; other site 338966007378 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966007379 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 338966007380 P-loop; other site 338966007381 Magnesium ion binding site [ion binding]; other site 338966007382 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 338966007383 Magnesium ion binding site [ion binding]; other site 338966007384 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 338966007385 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 338966007386 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 338966007387 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 338966007388 protein binding site [polypeptide binding]; other site 338966007389 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 338966007390 Catalytic dyad [active] 338966007391 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 338966007392 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 338966007393 FtsX-like permease family; Region: FtsX; cl15850 338966007394 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 338966007395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007396 Walker A/P-loop; other site 338966007397 ATP binding site [chemical binding]; other site 338966007398 Q-loop/lid; other site 338966007399 ABC transporter signature motif; other site 338966007400 Walker B; other site 338966007401 D-loop; other site 338966007402 H-loop/switch region; other site 338966007403 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338966007404 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966007405 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 338966007406 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 338966007407 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338966007408 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966007409 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338966007410 Walker A motif; other site 338966007411 ATP binding site [chemical binding]; other site 338966007412 Walker B motif; other site 338966007413 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966007414 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966007415 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966007416 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 338966007417 Ligand binding site; other site 338966007418 Putative Catalytic site; other site 338966007419 DXD motif; other site 338966007420 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 338966007421 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 338966007422 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966007423 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338966007424 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 338966007425 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966007426 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 338966007427 Walker A motif; other site 338966007428 ATP binding site [chemical binding]; other site 338966007429 Walker B motif; other site 338966007430 arginine finger; other site 338966007431 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 338966007432 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 338966007433 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 338966007434 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 338966007435 putative NADH binding site [chemical binding]; other site 338966007436 putative active site [active] 338966007437 nudix motif; other site 338966007438 putative metal binding site [ion binding]; other site 338966007439 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 338966007440 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 338966007441 metal binding site [ion binding]; metal-binding site 338966007442 dimer interface [polypeptide binding]; other site 338966007443 PilZ domain; Region: PilZ; cl01260 338966007444 CAAX protease self-immunity; Region: Abi; cl00558 338966007445 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966007446 active site 338966007447 NTP binding site [chemical binding]; other site 338966007448 metal binding triad [ion binding]; metal-binding site 338966007449 antibiotic binding site [chemical binding]; other site 338966007450 HEPN domain; Region: HEPN; cl00824 338966007451 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 338966007452 PemK-like protein; Region: PemK; cl00995 338966007453 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 338966007454 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 338966007455 active site 338966007456 phosphorylation site [posttranslational modification] 338966007457 intermolecular recognition site; other site 338966007458 dimerization interface [polypeptide binding]; other site 338966007459 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 338966007460 Walker A motif; other site 338966007461 ATP binding site [chemical binding]; other site 338966007462 Walker B motif; other site 338966007463 arginine finger; other site 338966007464 Helix-turn-helix domains; Region: HTH; cl00088 338966007465 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 338966007466 GAF domain; Region: GAF; cl15785 338966007467 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 338966007468 dimer interface [polypeptide binding]; other site 338966007469 phosphorylation site [posttranslational modification] 338966007470 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 338966007471 ATP binding site [chemical binding]; other site 338966007472 Mg2+ binding site [ion binding]; other site 338966007473 G-X-G motif; other site 338966007474 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 338966007475 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 338966007476 NAD binding site [chemical binding]; other site 338966007477 substrate binding site [chemical binding]; other site 338966007478 homodimer interface [polypeptide binding]; other site 338966007479 active site 338966007480 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 338966007481 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966007482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966007483 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 338966007484 eight transmembrane protein EpsH (proposed exosortase); Region: 8TM_EpsH; cl10495 338966007485 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338966007486 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 338966007487 ligand binding site [chemical binding]; other site 338966007488 flexible hinge region; other site 338966007489 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 338966007490 putative switch regulator; other site 338966007491 non-specific DNA interactions [nucleotide binding]; other site 338966007492 DNA binding site [nucleotide binding] 338966007493 sequence specific DNA binding site [nucleotide binding]; other site 338966007494 putative cAMP binding site [chemical binding]; other site 338966007495 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 338966007496 Interdomain contacts; other site 338966007497 Cytokine receptor motif; other site 338966007498 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007499 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007500 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 338966007501 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 338966007502 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 338966007503 putative active site [active] 338966007504 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966007505 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966007506 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 338966007507 HicB family; Region: HicB; pfam05534 338966007508 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 338966007509 active site 338966007510 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 338966007511 homodimer interface [polypeptide binding]; other site 338966007512 PEP-CTERM motif; Region: VPEP; cl15443 338966007513 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007514 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 338966007515 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 338966007516 trimer interface [polypeptide binding]; other site 338966007517 active site 338966007518 substrate binding site [chemical binding]; other site 338966007519 CoA binding site [chemical binding]; other site 338966007520 O-Antigen ligase; Region: Wzy_C; cl04850 338966007521 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966007522 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007523 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 338966007524 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 338966007525 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966007526 substrate binding site [chemical binding]; other site 338966007527 activation loop (A-loop); other site 338966007528 MatE; Region: MatE; cl10513 338966007529 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 338966007530 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 338966007531 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 338966007532 S-adenosylmethionine binding site [chemical binding]; other site 338966007533 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966007534 active site 338966007535 NTP binding site [chemical binding]; other site 338966007536 metal binding triad [ion binding]; metal-binding site 338966007537 antibiotic binding site [chemical binding]; other site 338966007538 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 338966007539 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 338966007540 putative ADP-binding pocket [chemical binding]; other site 338966007541 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 338966007542 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 338966007543 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338966007544 active site 338966007545 dimer interface [polypeptide binding]; other site 338966007546 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 338966007547 Ligand Binding Site [chemical binding]; other site 338966007548 Molecular Tunnel; other site 338966007549 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 338966007550 active site 338966007551 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 338966007552 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 338966007553 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966007554 polysaccharide deactylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 338966007555 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 338966007556 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 338966007557 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966007558 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966007559 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 338966007560 Walker A motif; other site 338966007561 ATP binding site [chemical binding]; other site 338966007562 Walker B motif; other site 338966007563 arginine finger; other site 338966007564 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 338966007565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007566 Chain length determinant protein; Region: Wzz; cl15801 338966007567 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 338966007568 Chain length determinant protein; Region: Wzz; cl15801 338966007569 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966007570 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966007571 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966007572 SLBB domain; Region: SLBB; pfam10531 338966007573 Bacterial sugar transferase; Region: Bac_transf; cl00939 338966007574 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 338966007575 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 338966007576 binding surface 338966007577 TPR motif; other site 338966007578 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 338966007579 TPR motif; other site 338966007580 binding surface 338966007581 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 338966007582 binding surface 338966007583 TPR motif; other site 338966007584 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 338966007585 binding surface 338966007586 TPR motif; other site 338966007587 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 338966007588 TPR motif; other site 338966007589 binding surface 338966007590 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 338966007591 binding surface 338966007592 TPR motif; other site 338966007593 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 338966007594 binding surface 338966007595 TPR motif; other site 338966007596 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 338966007597 binding surface 338966007598 TPR motif; other site 338966007599 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 338966007600 binding surface 338966007601 TPR motif; other site 338966007602 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966007603 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 338966007604 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 338966007605 FeS/SAM binding site; other site 338966007606 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 338966007607 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 338966007608 FeS/SAM binding site; other site 338966007609 HemN C-terminal domain; Region: HemN_C; pfam06969 338966007610 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 338966007611 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 338966007612 4Fe-4S binding domain; Region: Fer4; cl02805 338966007613 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 338966007614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966007615 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338966007616 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 338966007617 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 338966007618 putative Iron-sulfur protein interface [polypeptide binding]; other site 338966007619 proximal heme binding site [chemical binding]; other site 338966007620 distal heme binding site [chemical binding]; other site 338966007621 putative dimer interface [polypeptide binding]; other site 338966007622 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 338966007623 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 338966007624 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 338966007625 dimerization interface [polypeptide binding]; other site 338966007626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966007627 metal binding site [ion binding]; metal-binding site 338966007628 active site 338966007629 I-site; other site 338966007630 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_cladeC; cd03378 338966007631 active site clefts [active] 338966007632 zinc binding site [ion binding]; other site 338966007633 dimer interface [polypeptide binding]; other site 338966007634 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 338966007635 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 338966007636 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 338966007637 integral membrane protein MviN; Region: mviN; TIGR01695 338966007638 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 338966007639 Predicted transcriptional regulator [Transcription]; Region: COG4957 338966007640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966007641 UGMP family protein; Validated; Region: PRK09604 338966007642 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 338966007643 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 338966007644 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 338966007645 putative active site [active] 338966007646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007647 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 338966007648 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 338966007649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966007650 catalytic residue [active] 338966007651 Right handed beta helix region; Region: Beta_helix; pfam13229 338966007652 GAF domain; Region: GAF_2; pfam13185 338966007653 GAF domain; Region: GAF; cl15785 338966007654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966007655 metal binding site [ion binding]; metal-binding site 338966007656 active site 338966007657 I-site; other site 338966007658 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 338966007659 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 338966007660 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 338966007661 active site 338966007662 dimer interface [polypeptide binding]; other site 338966007663 effector binding site; other site 338966007664 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 338966007665 TSCPD domain; Region: TSCPD; cl14834 338966007666 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966007667 Phospholipid methyltransferase; Region: PEMT; cl00763 338966007668 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 338966007669 putative catalytic residues [active] 338966007670 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966007671 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 338966007672 FeS/SAM binding site; other site 338966007673 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966007674 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966007675 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966007676 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 338966007677 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966007678 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966007679 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966007680 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966007681 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966007682 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 338966007683 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 338966007684 dimer interface [polypeptide binding]; other site 338966007685 phosphorylation site [posttranslational modification] 338966007686 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 338966007687 ATP binding site [chemical binding]; other site 338966007688 Mg2+ binding site [ion binding]; other site 338966007689 G-X-G motif; other site 338966007690 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966007691 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966007692 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966007693 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 338966007694 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 338966007695 Walker A motif; other site 338966007696 ATP binding site [chemical binding]; other site 338966007697 Walker B motif; other site 338966007698 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338966007699 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966007700 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 338966007701 Walker A motif; other site 338966007702 ATP binding site [chemical binding]; other site 338966007703 Walker B motif; other site 338966007704 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 338966007705 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 338966007706 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 338966007707 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 338966007708 active site 338966007709 Riboflavin kinase; Region: Flavokinase; cl03312 338966007710 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 338966007711 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 338966007712 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 338966007713 ssDNA binding site; other site 338966007714 generic binding surface II; other site 338966007715 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 338966007716 ATP binding site [chemical binding]; other site 338966007717 putative Mg++ binding site [ion binding]; other site 338966007718 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 338966007719 nucleotide binding region [chemical binding]; other site 338966007720 ATP-binding site [chemical binding]; other site 338966007721 PilZ domain; Region: PilZ; cl01260 338966007722 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338966007723 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966007724 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 338966007725 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 338966007726 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 338966007727 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 338966007728 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 338966007729 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338966007730 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966007731 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 338966007732 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966007733 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966007734 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 338966007735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966007736 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966007737 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 338966007738 IMP binding site; other site 338966007739 dimer interface [polypeptide binding]; other site 338966007740 interdomain contacts; other site 338966007741 partial ornithine binding site; other site 338966007742 Protein of unknown function, DUF486; Region: DUF486; cl01236 338966007743 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 338966007744 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 338966007745 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 338966007746 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 338966007747 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 338966007748 catalytic site [active] 338966007749 subunit interface [polypeptide binding]; other site 338966007750 dihydroorotase; Validated; Region: pyrC; PRK09357 338966007751 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 338966007752 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 338966007753 active site 338966007754 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 338966007755 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338966007756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966007757 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966007758 active site 338966007759 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 338966007760 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338966007761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007762 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 338966007763 Family description; Region: UvrD_C_2; cl15862 338966007764 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966007765 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966007766 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 338966007767 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966007768 ATP binding site [chemical binding]; other site 338966007769 Mg++ binding site [ion binding]; other site 338966007770 motif III; other site 338966007771 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 338966007772 nucleotide binding region [chemical binding]; other site 338966007773 ATP-binding site [chemical binding]; other site 338966007774 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 338966007775 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 338966007776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007777 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 338966007778 Family description; Region: UvrD_C_2; cl15862 338966007779 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 338966007780 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 338966007781 FAD binding domain; Region: FAD_binding_4; pfam01565 338966007782 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 338966007783 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966007784 4Fe-4S binding domain; Region: Fer4; cl02805 338966007785 Cysteine-rich domain; Region: CCG; pfam02754 338966007786 Cysteine-rich domain; Region: CCG; pfam02754 338966007787 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 338966007788 intersubunit interface [polypeptide binding]; other site 338966007789 active site 338966007790 Zn2+ binding site [ion binding]; other site 338966007791 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 338966007792 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 338966007793 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 338966007794 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966007795 rod shape-determining protein MreD; Region: MreD; cl01087 338966007796 rod shape-determining protein MreC; Provisional; Region: PRK13922 338966007797 rod shape-determining protein MreC; Region: MreC; pfam04085 338966007798 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 338966007799 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 338966007800 substrate binding site; other site 338966007801 tetramer interface; other site 338966007802 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 338966007803 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 338966007804 active site 338966007805 motif I; other site 338966007806 motif II; other site 338966007807 NeuB family; Region: NeuB; cl00496 338966007808 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966007809 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 338966007810 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 338966007811 tandem repeat interface [polypeptide binding]; other site 338966007812 oligomer interface [polypeptide binding]; other site 338966007813 active site residues [active] 338966007814 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 338966007815 active site 338966007816 metal binding site [ion binding]; metal-binding site 338966007817 homotetramer interface [polypeptide binding]; other site 338966007818 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338966007819 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 338966007820 ketol-acid reductoisomerase; Provisional; Region: PRK05479 338966007821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966007822 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 338966007823 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 338966007824 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 338966007825 putative valine binding site [chemical binding]; other site 338966007826 dimer interface [polypeptide binding]; other site 338966007827 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 338966007828 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 338966007829 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 338966007830 putative valine binding site [chemical binding]; other site 338966007831 dimer interface [polypeptide binding]; other site 338966007832 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 338966007833 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 338966007834 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966007835 PYR/PP interface [polypeptide binding]; other site 338966007836 dimer interface [polypeptide binding]; other site 338966007837 TPP binding site [chemical binding]; other site 338966007838 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 338966007839 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 338966007840 TPP-binding site [chemical binding]; other site 338966007841 dimer interface [polypeptide binding]; other site 338966007842 Dehydratase family; Region: ILVD_EDD; cl00340 338966007843 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 338966007844 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966007845 PYR/PP interface [polypeptide binding]; other site 338966007846 dimer interface [polypeptide binding]; other site 338966007847 TPP binding site [chemical binding]; other site 338966007848 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 338966007849 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 338966007850 TPP-binding site [chemical binding]; other site 338966007851 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338966007852 Helix-turn-helix domains; Region: HTH; cl00088 338966007853 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966007854 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_22; cd04681 338966007855 nudix motif; other site 338966007856 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 338966007857 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966007858 active site 338966007859 substrate binding site [chemical binding]; other site 338966007860 Mg2+ binding site [ion binding]; other site 338966007861 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 338966007862 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 338966007863 peptidase T-like protein; Region: PepT-like; TIGR01883 338966007864 metal binding site [ion binding]; metal-binding site 338966007865 putative dimer interface [polypeptide binding]; other site 338966007866 exonuclease subunit SbcD; Provisional; Region: PRK10966 338966007867 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 338966007868 active site 338966007869 metal binding site [ion binding]; metal-binding site 338966007870 DNA binding site [nucleotide binding] 338966007871 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 338966007872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007873 Walker A/P-loop; other site 338966007874 ATP binding site [chemical binding]; other site 338966007875 Q-loop/lid; other site 338966007876 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 338966007877 exonuclease subunit SbcC; Provisional; Region: PRK10246 338966007878 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966007879 ABC transporter signature motif; other site 338966007880 Walker B; other site 338966007881 D-loop; other site 338966007882 H-loop/switch region; other site 338966007883 FRG domain; Region: FRG; cl07460 338966007884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966007885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 338966007886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966007887 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 338966007888 active site 338966007889 dimer interface [polypeptide binding]; other site 338966007890 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 338966007891 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966007892 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 338966007893 FeS/SAM binding site; other site 338966007894 Transposase domain (DUF772); Region: DUF772; pfam05598 338966007895 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966007896 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966007897 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966007898 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 338966007899 catalytic residues [active] 338966007900 catalytic nucleophile [active] 338966007901 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966007902 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966007903 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966007904 Synaptic Site I dimer interface [polypeptide binding]; other site 338966007905 DNA binding site [nucleotide binding] 338966007906 Helix-turn-helix domains; Region: HTH; cl00088 338966007907 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007908 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 338966007909 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 338966007910 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 338966007911 Ligand binding site; other site 338966007912 Putative Catalytic site; other site 338966007913 DXD motif; other site 338966007914 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 338966007915 active site 338966007916 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 338966007917 ResB-like family; Region: ResB; pfam05140 338966007918 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 338966007919 AIR carboxylase; Region: AIRC; cl00310 338966007920 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966007921 FIST N domain; Region: FIST; cl10701 338966007922 FIST C domain; Region: FIST_C; pfam10442 338966007923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966007924 dimer interface [polypeptide binding]; other site 338966007925 putative CheW interface [polypeptide binding]; other site 338966007926 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 338966007927 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 338966007928 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966007929 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 338966007930 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 338966007931 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 338966007932 purine monophosphate binding site [chemical binding]; other site 338966007933 dimer interface [polypeptide binding]; other site 338966007934 putative catalytic residues [active] 338966007935 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 338966007936 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 338966007937 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 338966007938 alanine racemase; Reviewed; Region: alr; PRK00053 338966007939 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 338966007940 active site 338966007941 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966007942 dimer interface [polypeptide binding]; other site 338966007943 substrate binding site [chemical binding]; other site 338966007944 catalytic residues [active] 338966007945 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 338966007946 thiamine phosphate binding site [chemical binding]; other site 338966007947 active site 338966007948 pyrophosphate binding site [ion binding]; other site 338966007949 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 338966007950 substrate binding site [chemical binding]; other site 338966007951 dimer interface [polypeptide binding]; other site 338966007952 ATP binding site [chemical binding]; other site 338966007953 ThiC family; Region: ThiC; cl08031 338966007954 PAS domain; Region: PAS_9; pfam13426 338966007955 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 338966007956 putative active site [active] 338966007957 heme pocket [chemical binding]; other site 338966007958 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 338966007959 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966007960 putative active site [active] 338966007961 heme pocket [chemical binding]; other site 338966007962 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 338966007963 dimer interface [polypeptide binding]; other site 338966007964 phosphorylation site [posttranslational modification] 338966007965 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 338966007966 ATP binding site [chemical binding]; other site 338966007967 Mg2+ binding site [ion binding]; other site 338966007968 G-X-G motif; other site 338966007969 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 338966007970 active site 338966007971 phosphorylation site [posttranslational modification] 338966007972 intermolecular recognition site; other site 338966007973 dimerization interface [polypeptide binding]; other site 338966007974 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966007975 NeuB family; Region: NeuB; cl00496 338966007976 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 338966007977 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 338966007978 ligand binding site [chemical binding]; other site 338966007979 flexible hinge region; other site 338966007980 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 338966007981 putative switch regulator; other site 338966007982 non-specific DNA interactions [nucleotide binding]; other site 338966007983 DNA binding site [nucleotide binding] 338966007984 sequence specific DNA binding site [nucleotide binding]; other site 338966007985 putative cAMP binding site [chemical binding]; other site 338966007986 transketolase; Reviewed; Region: PRK05899 338966007987 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 338966007988 TPP-binding site [chemical binding]; other site 338966007989 dimer interface [polypeptide binding]; other site 338966007990 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 338966007991 PYR/PP interface [polypeptide binding]; other site 338966007992 dimer interface [polypeptide binding]; other site 338966007993 TPP binding site [chemical binding]; other site 338966007994 thiamine monophosphate kinase; Provisional; Region: PRK05731 338966007995 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 338966007996 ATP binding site [chemical binding]; other site 338966007997 dimerization interface [polypeptide binding]; other site 338966007998 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 338966007999 CoenzymeA binding site [chemical binding]; other site 338966008000 subunit interaction site [polypeptide binding]; other site 338966008001 PHB binding site; other site 338966008002 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338966008003 Found in ATP-dependent protease La (LON); Region: LON; smart00464 338966008004 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 338966008005 Walker A motif; other site 338966008006 ATP binding site [chemical binding]; other site 338966008007 Walker B motif; other site 338966008008 arginine finger; other site 338966008009 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966008010 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 338966008011 putative dimer interface [polypeptide binding]; other site 338966008012 arginine decarboxylase; Provisional; Region: PRK05354 338966008013 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 338966008014 dimer interface [polypeptide binding]; other site 338966008015 active site 338966008016 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966008017 catalytic residues [active] 338966008018 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 338966008019 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 338966008020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008021 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 338966008022 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 338966008023 dimer interface [polypeptide binding]; other site 338966008024 active site 338966008025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966008026 catalytic residues [active] 338966008027 substrate binding site [chemical binding]; other site 338966008028 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 338966008029 PAS fold; Region: PAS_3; pfam08447 338966008030 putative active site [active] 338966008031 heme pocket [chemical binding]; other site 338966008032 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 338966008033 PAS fold; Region: PAS_3; pfam08447 338966008034 putative active site [active] 338966008035 heme pocket [chemical binding]; other site 338966008036 PAS domain S-box; Region: sensory_box; TIGR00229 338966008037 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 338966008038 putative active site [active] 338966008039 heme pocket [chemical binding]; other site 338966008040 PAS domain S-box; Region: sensory_box; TIGR00229 338966008041 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 338966008042 hypothetical protein; Provisional; Region: PRK13560 338966008043 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 338966008044 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 338966008045 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966008046 putative active site [active] 338966008047 heme pocket [chemical binding]; other site 338966008048 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 338966008049 dimer interface [polypeptide binding]; other site 338966008050 phosphorylation site [posttranslational modification] 338966008051 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 338966008052 ATP binding site [chemical binding]; other site 338966008053 Mg2+ binding site [ion binding]; other site 338966008054 G-X-G motif; other site 338966008055 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008056 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 338966008057 active site 338966008058 phosphorylation site [posttranslational modification] 338966008059 intermolecular recognition site; other site 338966008060 dimerization interface [polypeptide binding]; other site 338966008061 primosome assembly protein PriA; Validated; Region: PRK05580 338966008062 primosome assembly protein PriA; Validated; Region: PRK05580 338966008063 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 338966008064 ATP binding site [chemical binding]; other site 338966008065 putative Mg++ binding site [ion binding]; other site 338966008066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008067 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966008068 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 338966008069 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 338966008070 Walker A/P-loop; other site 338966008071 ATP binding site [chemical binding]; other site 338966008072 Q-loop/lid; other site 338966008073 ABC transporter signature motif; other site 338966008074 Walker B; other site 338966008075 D-loop; other site 338966008076 H-loop/switch region; other site 338966008077 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 338966008078 heme-binding site [chemical binding]; other site 338966008079 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966008080 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 338966008081 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 338966008082 integron integrase; Region: integrase_gron; TIGR02249 338966008083 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 338966008084 Int/Topo IB signature motif; other site 338966008085 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966008087 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 338966008088 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966008089 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966008090 Rubrerythrin [Energy production and conversion]; Region: COG1592 338966008091 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338966008092 binuclear metal center [ion binding]; other site 338966008093 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 338966008094 iron binding site [ion binding]; other site 338966008095 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 338966008096 MatE; Region: MatE; cl10513 338966008097 MatE; Region: MatE; cl10513 338966008098 Cupin domain; Region: Cupin_2; cl09118 338966008099 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 338966008100 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 338966008101 heterodimer interface [polypeptide binding]; other site 338966008102 active site 338966008103 FMN binding site [chemical binding]; other site 338966008104 homodimer interface [polypeptide binding]; other site 338966008105 substrate binding site [chemical binding]; other site 338966008106 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 338966008107 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 338966008108 FAD binding pocket [chemical binding]; other site 338966008109 FAD binding motif [chemical binding]; other site 338966008110 phosphate binding motif [ion binding]; other site 338966008111 beta-alpha-beta structure motif; other site 338966008112 NAD binding pocket [chemical binding]; other site 338966008113 Iron coordination center [ion binding]; other site 338966008114 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 338966008115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966008116 Coenzyme A binding pocket [chemical binding]; other site 338966008117 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966008118 Helix-turn-helix domains; Region: HTH; cl00088 338966008119 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 338966008120 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 338966008121 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 338966008122 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 338966008123 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 338966008124 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 338966008125 putative substrate translocation pore; other site 338966008126 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 338966008127 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966008128 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 338966008129 B12 binding site [chemical binding]; other site 338966008130 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966008131 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 338966008132 FeS/SAM binding site; other site 338966008133 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966008134 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 338966008135 TPR motif; other site 338966008136 binding surface 338966008137 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 338966008138 putative peptidoglycan binding site; other site 338966008139 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 338966008140 putative peptidoglycan binding site; other site 338966008141 NlpC/P60 family; Region: NLPC_P60; cl11438 338966008142 Uncharacterized conserved protein [Function unknown]; Region: COG1624 338966008143 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 338966008144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 338966008145 YbbR-like protein; Region: YbbR; pfam07949 338966008146 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 338966008147 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 338966008148 S-adenosylmethionine binding site [chemical binding]; other site 338966008149 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966008150 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 338966008151 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 338966008152 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 338966008153 putative deacylase active site [active] 338966008154 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 338966008155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966008156 Coenzyme A binding pocket [chemical binding]; other site 338966008157 peptide chain release factor 1; Validated; Region: prfA; PRK00591 338966008158 RF-1 domain; Region: RF-1; cl02875 338966008159 RF-1 domain; Region: RF-1; cl02875 338966008160 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 338966008161 Thymidylate synthase complementing protein; Region: Thy1; cl03630 338966008162 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 338966008163 transcription termination factor Rho; Provisional; Region: rho; PRK09376 338966008164 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 338966008165 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 338966008166 RNA binding site [nucleotide binding]; other site 338966008167 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 338966008168 multimer interface [polypeptide binding]; other site 338966008169 Walker A motif; other site 338966008170 ATP binding site [chemical binding]; other site 338966008171 Walker B motif; other site 338966008172 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008173 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 338966008174 active site 338966008175 phosphorylation site [posttranslational modification] 338966008176 intermolecular recognition site; other site 338966008177 PAS domain; Region: PAS_9; pfam13426 338966008178 histidine kinase; Provisional; Region: PRK13557 338966008179 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 338966008180 ATP binding site [chemical binding]; other site 338966008181 G-X-G motif; other site 338966008182 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 338966008183 active site 338966008184 phosphorylation site [posttranslational modification] 338966008185 intermolecular recognition site; other site 338966008186 dimerization interface [polypeptide binding]; other site 338966008187 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338966008188 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 338966008189 peptide binding site [polypeptide binding]; other site 338966008190 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 338966008191 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 338966008192 TPR motif; other site 338966008193 binding surface 338966008194 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 338966008195 TPR motif; other site 338966008196 binding surface 338966008197 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 338966008198 binding surface 338966008199 TPR motif; other site 338966008200 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966008201 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 338966008202 TPR motif; other site 338966008203 binding surface 338966008204 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 338966008205 binding surface 338966008206 TPR motif; other site 338966008207 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 338966008208 binding surface 338966008209 TPR motif; other site 338966008210 TPR repeat; Region: TPR_11; pfam13414 338966008211 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 338966008212 binding surface 338966008213 TPR motif; other site 338966008214 TPR repeat; Region: TPR_11; pfam13414 338966008215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 338966008216 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 338966008217 AAA domain; Region: AAA_33; pfam13671 338966008218 ATP-binding site [chemical binding]; other site 338966008219 Gluconate-6-phosphate binding site [chemical binding]; other site 338966008220 Sodium:solute symporter family; Region: SSF; cl00456 338966008221 GAF domain; Region: GAF; cl15785 338966008222 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 338966008223 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 338966008224 anti sigma factor interaction site; other site 338966008225 regulatory phosphorylation site [posttranslational modification]; other site 338966008226 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 338966008227 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 338966008228 ATP binding site [chemical binding]; other site 338966008229 Mg2+ binding site [ion binding]; other site 338966008230 G-X-G motif; other site 338966008231 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966008232 dimer interface [polypeptide binding]; other site 338966008233 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 338966008234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966008235 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 338966008236 DNA binding residues [nucleotide binding] 338966008237 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 338966008238 IHF dimer interface [polypeptide binding]; other site 338966008239 IHF - DNA interface [nucleotide binding]; other site 338966008240 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 338966008241 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 338966008242 inhibitor-cofactor binding pocket; inhibition site 338966008243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966008244 catalytic residue [active] 338966008245 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 338966008246 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 338966008247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008248 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 338966008249 Transcriptional regulators [Transcription]; Region: FadR; COG2186 338966008250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966008251 DNA-binding site [nucleotide binding]; DNA binding site 338966008252 FCD domain; Region: FCD; cl11656 338966008253 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 338966008254 RuvA N terminal domain; Region: RuvA_N; pfam01330 338966008255 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 338966008256 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 338966008257 active site 338966008258 putative DNA-binding cleft [nucleotide binding]; other site 338966008259 dimer interface [polypeptide binding]; other site 338966008260 Transcriptional regulator; Region: Transcrip_reg; cl00361 338966008261 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 338966008262 PAS domain; Region: PAS_9; pfam13426 338966008263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008264 metal binding site [ion binding]; metal-binding site 338966008265 active site 338966008266 I-site; other site 338966008267 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 338966008268 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 338966008269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008270 metal binding site [ion binding]; metal-binding site 338966008271 active site 338966008272 I-site; other site 338966008273 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 338966008274 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966008275 dimer interface [polypeptide binding]; other site 338966008276 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966008277 putative CheW interface [polypeptide binding]; other site 338966008278 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 338966008279 anti sigma factor interaction site; other site 338966008280 regulatory phosphorylation site [posttranslational modification]; other site 338966008281 Transposase domain (DUF772); Region: DUF772; pfam05598 338966008282 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008283 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966008284 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 338966008285 PAS domain S-box; Region: sensory_box; TIGR00229 338966008286 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 338966008287 PAS domain S-box; Region: sensory_box; TIGR00229 338966008288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008289 metal binding site [ion binding]; metal-binding site 338966008290 active site 338966008291 I-site; other site 338966008292 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 338966008293 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 338966008294 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 338966008295 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 338966008296 active site 338966008297 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338966008298 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 338966008299 Walker A motif; other site 338966008300 ATP binding site [chemical binding]; other site 338966008301 Walker B motif; other site 338966008302 arginine finger; other site 338966008303 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 338966008304 Ligand binding site; other site 338966008305 Ligand binding site; other site 338966008306 Ligand binding site; other site 338966008307 Putative Catalytic site; other site 338966008308 DXD motif; other site 338966008309 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 338966008310 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 338966008311 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 338966008312 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966008313 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 338966008314 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 338966008315 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 338966008316 ATP binding site [chemical binding]; other site 338966008317 Walker A motif; other site 338966008318 hexamer interface [polypeptide binding]; other site 338966008319 Walker B motif; other site 338966008320 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 338966008321 active site 338966008322 phosphorylation site [posttranslational modification] 338966008323 dimerization interface [polypeptide binding]; other site 338966008324 AAA domain; Region: AAA_31; pfam13614 338966008325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008326 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 338966008327 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 338966008328 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966008329 SAF domain; Region: SAF; cl00555 338966008330 TadE-like protein; Region: TadE; cl10688 338966008331 conserved hypothetical protein; Region: TIGR02231 338966008332 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 338966008333 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 338966008334 Sensory domain found in PocR; Region: PocR; pfam10114 338966008335 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966008336 PAS fold; Region: PAS_4; pfam08448 338966008337 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 338966008338 putative active site [active] 338966008339 heme pocket [chemical binding]; other site 338966008340 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 338966008341 PAS fold; Region: PAS_3; pfam08447 338966008342 putative active site [active] 338966008343 heme pocket [chemical binding]; other site 338966008344 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 338966008345 dimer interface [polypeptide binding]; other site 338966008346 phosphorylation site [posttranslational modification] 338966008347 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 338966008348 ATP binding site [chemical binding]; other site 338966008349 Mg2+ binding site [ion binding]; other site 338966008350 G-X-G motif; other site 338966008351 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008352 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 338966008353 active site 338966008354 phosphorylation site [posttranslational modification] 338966008355 intermolecular recognition site; other site 338966008356 dimerization interface [polypeptide binding]; other site 338966008357 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966008358 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 338966008359 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 338966008360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966008361 dimer interface [polypeptide binding]; other site 338966008362 putative CheW interface [polypeptide binding]; other site 338966008363 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966008364 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 338966008365 anti sigma factor interaction site; other site 338966008366 regulatory phosphorylation site [posttranslational modification]; other site 338966008367 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966008368 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 338966008369 active site 338966008370 phosphorylation site [posttranslational modification] 338966008371 intermolecular recognition site; other site 338966008372 dimerization interface [polypeptide binding]; other site 338966008373 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 338966008374 DNA binding residues [nucleotide binding] 338966008375 dimerization interface [polypeptide binding]; other site 338966008376 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 338966008377 PAS domain S-box; Region: sensory_box; TIGR00229 338966008378 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 338966008379 putative active site [active] 338966008380 heme pocket [chemical binding]; other site 338966008381 PAS fold; Region: PAS_4; pfam08448 338966008382 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 338966008383 putative active site [active] 338966008384 heme pocket [chemical binding]; other site 338966008385 GAF domain; Region: GAF; cl15785 338966008386 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966008387 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966008388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966008389 Histidine kinase; Region: HisKA_3; pfam07730 338966008390 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 338966008391 ATP binding site [chemical binding]; other site 338966008392 Mg2+ binding site [ion binding]; other site 338966008393 G-X-G motif; other site 338966008394 Ferrochelatase; Region: Ferrochelatase; pfam00762 338966008395 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 338966008396 C-terminal domain interface [polypeptide binding]; other site 338966008397 active site 338966008398 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 338966008399 active site 338966008400 N-terminal domain interface [polypeptide binding]; other site 338966008401 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966008402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008403 metal binding site [ion binding]; metal-binding site 338966008404 active site 338966008405 I-site; other site 338966008406 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 338966008407 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008408 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 338966008409 active site 338966008410 phosphorylation site [posttranslational modification] 338966008411 intermolecular recognition site; other site 338966008412 dimerization interface [polypeptide binding]; other site 338966008413 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008414 GAF domain; Region: GAF_2; pfam13185 338966008415 GAF domain; Region: GAF; cl15785 338966008416 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 338966008417 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 338966008418 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966008419 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 338966008420 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 338966008421 putative active site [active] 338966008422 heme pocket [chemical binding]; other site 338966008423 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 338966008424 dimer interface [polypeptide binding]; other site 338966008425 phosphorylation site [posttranslational modification] 338966008426 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 338966008427 ATP binding site [chemical binding]; other site 338966008428 Mg2+ binding site [ion binding]; other site 338966008429 G-X-G motif; other site 338966008430 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008431 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 338966008432 active site 338966008433 phosphorylation site [posttranslational modification] 338966008434 intermolecular recognition site; other site 338966008435 dimerization interface [polypeptide binding]; other site 338966008436 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966008437 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 338966008438 active site 338966008439 phosphorylation site [posttranslational modification] 338966008440 intermolecular recognition site; other site 338966008441 dimerization interface [polypeptide binding]; other site 338966008442 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966008443 Zn2+ binding site [ion binding]; other site 338966008444 Mg2+ binding site [ion binding]; other site 338966008445 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008446 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 338966008447 active site 338966008448 phosphorylation site [posttranslational modification] 338966008449 intermolecular recognition site; other site 338966008450 dimerization interface [polypeptide binding]; other site 338966008451 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 338966008452 PAS domain; Region: PAS_9; pfam13426 338966008453 PAS domain S-box; Region: sensory_box; TIGR00229 338966008454 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 338966008455 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 338966008456 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966008457 putative active site [active] 338966008458 heme pocket [chemical binding]; other site 338966008459 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 338966008460 dimer interface [polypeptide binding]; other site 338966008461 phosphorylation site [posttranslational modification] 338966008462 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 338966008463 ATP binding site [chemical binding]; other site 338966008464 Mg2+ binding site [ion binding]; other site 338966008465 G-X-G motif; other site 338966008466 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008467 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 338966008468 active site 338966008469 phosphorylation site [posttranslational modification] 338966008470 intermolecular recognition site; other site 338966008471 dimerization interface [polypeptide binding]; other site 338966008472 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 338966008473 putative active site [active] 338966008474 PAS fold; Region: PAS_3; pfam08447 338966008475 heme pocket [chemical binding]; other site 338966008476 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 338966008477 dimer interface [polypeptide binding]; other site 338966008478 phosphorylation site [posttranslational modification] 338966008479 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 338966008480 ATP binding site [chemical binding]; other site 338966008481 Mg2+ binding site [ion binding]; other site 338966008482 G-X-G motif; other site 338966008483 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966008484 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 338966008485 active site 338966008486 phosphorylation site [posttranslational modification] 338966008487 intermolecular recognition site; other site 338966008488 PAS domain S-box; Region: sensory_box; TIGR00229 338966008489 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 338966008490 putative active site [active] 338966008491 heme pocket [chemical binding]; other site 338966008492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008493 metal binding site [ion binding]; metal-binding site 338966008494 active site 338966008495 I-site; other site 338966008496 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 338966008497 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 338966008498 active site 338966008499 phosphorylation site [posttranslational modification] 338966008500 intermolecular recognition site; other site 338966008501 dimerization interface [polypeptide binding]; other site 338966008502 GAF domain; Region: GAF_2; pfam13185 338966008503 GAF domain; Region: GAF; cl15785 338966008504 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 338966008505 dimer interface [polypeptide binding]; other site 338966008506 phosphorylation site [posttranslational modification] 338966008507 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 338966008508 ATP binding site [chemical binding]; other site 338966008509 Mg2+ binding site [ion binding]; other site 338966008510 G-X-G motif; other site 338966008511 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 338966008512 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 338966008513 substrate binding site [chemical binding]; other site 338966008514 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 338966008515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966008516 active site 338966008517 Helix-turn-helix domains; Region: HTH; cl00088 338966008518 Rrf2 family protein; Region: rrf2_super; TIGR00738 338966008519 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 338966008520 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 338966008521 ATP binding site [chemical binding]; other site 338966008522 putative Mg++ binding site [ion binding]; other site 338966008523 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 338966008524 nucleotide binding region [chemical binding]; other site 338966008525 ATP-binding site [chemical binding]; other site 338966008526 L-lactate permease; Region: Lactate_perm; cl00701 338966008527 L-lactate permease; Region: Lactate_perm; cl00701 338966008528 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 338966008529 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 338966008530 NAD(P) binding site [chemical binding]; other site 338966008531 Survival protein SurE; Region: SurE; cl00448 338966008532 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 338966008533 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 338966008534 S-adenosylmethionine binding site [chemical binding]; other site 338966008535 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966008536 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 338966008537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966008538 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966008539 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 338966008540 DNA binding residues [nucleotide binding] 338966008541 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 338966008542 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966008543 active site 338966008544 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 338966008545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966008546 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 338966008547 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966008548 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 338966008549 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966008550 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 338966008551 putative active site [active] 338966008552 putative metal binding site [ion binding]; other site 338966008553 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338966008554 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 338966008555 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 338966008556 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966008557 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008558 Walker A/P-loop; other site 338966008559 ATP binding site [chemical binding]; other site 338966008560 Q-loop/lid; other site 338966008561 ABC transporter signature motif; other site 338966008562 Walker B; other site 338966008563 D-loop; other site 338966008564 H-loop/switch region; other site 338966008565 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966008566 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966008567 PLD-like domain; Region: PLDc_2; pfam13091 338966008568 putative active site [active] 338966008569 catalytic site [active] 338966008570 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966008571 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 338966008572 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 338966008573 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 338966008574 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966008575 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 338966008576 FeS/SAM binding site; other site 338966008577 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966008578 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 338966008579 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966008580 Probable Catalytic site; other site 338966008581 metal-binding site 338966008582 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 338966008583 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966008584 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 338966008585 active site 338966008586 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 338966008587 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 338966008588 putative ADP-binding pocket [chemical binding]; other site 338966008589 Transposase domain (DUF772); Region: DUF772; pfam05598 338966008590 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008591 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966008592 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 338966008593 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 338966008594 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 338966008595 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 338966008596 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 338966008597 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966008598 catalytic residue [active] 338966008599 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966008600 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 338966008601 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966008602 putative NAD(P) binding site [chemical binding]; other site 338966008603 active site 338966008604 acyl-CoA synthetase; Validated; Region: PRK09192 338966008605 AMP-binding enzyme; Region: AMP-binding; cl15778 338966008606 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 338966008607 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 338966008608 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 338966008609 active site 338966008610 metal-binding site 338966008611 Protein of unknown function DUF45; Region: DUF45; cl00636 338966008612 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 338966008613 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 338966008614 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 338966008615 dimerization interface [polypeptide binding]; other site 338966008616 ATP binding site [chemical binding]; other site 338966008617 Hydrogenase formation hypA family; Region: HypD; cl12072 338966008618 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 338966008619 HupF/HypC family; Region: HupF_HypC; cl00394 338966008620 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 338966008621 Acylphosphatase; Region: Acylphosphatase; cl00551 338966008622 HypF finger; Region: zf-HYPF; pfam07503 338966008623 HypF finger; Region: zf-HYPF; pfam07503 338966008624 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 338966008625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008626 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 338966008627 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 338966008628 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966008629 hydrogenase 4 subunit H; Validated; Region: PRK08222 338966008630 4Fe-4S binding domain; Region: Fer4; cl02805 338966008631 NADH dehydrogenase; Region: NADHdh; cl00469 338966008632 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 338966008633 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966008634 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966008635 hydrogenase 4 subunit B; Validated; Region: PRK06521 338966008636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966008637 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 338966008638 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 338966008639 FAD binding pocket [chemical binding]; other site 338966008640 FAD binding motif [chemical binding]; other site 338966008641 phosphate binding motif [ion binding]; other site 338966008642 beta-alpha-beta structure motif; other site 338966008643 NAD binding pocket [chemical binding]; other site 338966008644 Iron coordination center [ion binding]; other site 338966008645 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 338966008646 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 338966008647 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 338966008648 molybdopterin cofactor binding site; other site 338966008649 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 338966008650 molybdopterin cofactor binding site; other site 338966008651 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966008652 hydrogenase 4 subunit H; Validated; Region: PRK08222 338966008653 4Fe-4S binding domain; Region: Fer4; cl02805 338966008654 NADH dehydrogenase; Region: NADHdh; cl00469 338966008655 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 338966008656 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966008657 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966008658 hydrogenase 4 subunit B; Validated; Region: PRK06521 338966008659 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966008660 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 338966008661 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 338966008662 nickel binding site [ion binding]; other site 338966008663 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 338966008664 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 338966008665 FAD binding pocket [chemical binding]; other site 338966008666 FAD binding motif [chemical binding]; other site 338966008667 phosphate binding motif [ion binding]; other site 338966008668 beta-alpha-beta structure motif; other site 338966008669 NAD binding pocket [chemical binding]; other site 338966008670 Iron coordination center [ion binding]; other site 338966008671 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 338966008672 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 338966008673 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 338966008674 molybdopterin cofactor binding site; other site 338966008675 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 338966008676 molybdopterin cofactor binding site; other site 338966008677 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 338966008678 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 338966008679 active site 338966008680 metal binding site [ion binding]; metal-binding site 338966008681 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 338966008682 Cupin domain; Region: Cupin_2; cl09118 338966008683 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 338966008684 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 338966008685 ring oligomerisation interface [polypeptide binding]; other site 338966008686 ATP/Mg binding site [chemical binding]; other site 338966008687 stacking interactions; other site 338966008688 hinge regions; other site 338966008689 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 338966008690 oligomerisation interface [polypeptide binding]; other site 338966008691 mobile loop; other site 338966008692 roof hairpin; other site 338966008693 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 338966008694 homotrimer interface [polypeptide binding]; other site 338966008695 Walker A motif; other site 338966008696 GTP binding site [chemical binding]; other site 338966008697 Walker B motif; other site 338966008698 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 338966008699 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 338966008700 putative dimer interface [polypeptide binding]; other site 338966008701 active site pocket [active] 338966008702 putative cataytic base [active] 338966008703 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 338966008704 aminodeoxychorismate synthase; Provisional; Region: PRK07508 338966008705 chorismate binding enzyme; Region: Chorismate_bind; cl10555 338966008706 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 338966008707 substrate-cofactor binding pocket; other site 338966008708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966008709 ThiC family; Region: ThiC; cl08031 338966008710 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966008711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966008712 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 338966008713 dimerization interface [polypeptide binding]; other site 338966008714 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 338966008715 dimer interface [polypeptide binding]; other site 338966008716 phosphorylation site [posttranslational modification] 338966008717 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 338966008718 ATP binding site [chemical binding]; other site 338966008719 Mg2+ binding site [ion binding]; other site 338966008720 G-X-G motif; other site 338966008721 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 338966008722 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966008723 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 338966008724 active site 338966008725 phosphorylation site [posttranslational modification] 338966008726 intermolecular recognition site; other site 338966008727 dimerization interface [polypeptide binding]; other site 338966008728 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 338966008729 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966008730 PYR/PP interface [polypeptide binding]; other site 338966008731 dimer interface [polypeptide binding]; other site 338966008732 TPP binding site [chemical binding]; other site 338966008733 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 338966008734 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 338966008735 TPP-binding site [chemical binding]; other site 338966008736 dimer interface [polypeptide binding]; other site 338966008737 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 338966008738 catalytic core [active] 338966008739 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 338966008740 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 338966008741 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966008742 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 338966008743 aconitate hydratase 2; Provisional; Region: PLN00094 338966008744 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338966008745 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 338966008746 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 338966008747 B12 binding site [chemical binding]; other site 338966008748 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 338966008749 FeS/SAM binding site; other site 338966008750 YdjC-like protein; Region: YdjC; cl01344 338966008751 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 338966008752 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 338966008753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008754 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 338966008755 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 338966008756 FAD binding pocket [chemical binding]; other site 338966008757 FAD binding motif [chemical binding]; other site 338966008758 phosphate binding motif [ion binding]; other site 338966008759 beta-alpha-beta structure motif; other site 338966008760 NAD binding pocket [chemical binding]; other site 338966008761 Iron coordination center [ion binding]; other site 338966008762 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 338966008763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966008765 PilZ domain; Region: PilZ; cl01260 338966008766 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338966008767 Helix-turn-helix domains; Region: HTH; cl00088 338966008768 Bacterial transcriptional regulator; Region: IclR; pfam01614 338966008769 DNA polymerase I; Provisional; Region: PRK05755 338966008770 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338966008771 active site 338966008772 metal binding site 1 [ion binding]; metal-binding site 338966008773 putative 5' ssDNA interaction site; other site 338966008774 metal binding site 3; metal-binding site 338966008775 metal binding site 2 [ion binding]; metal-binding site 338966008776 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338966008777 putative DNA binding site [nucleotide binding]; other site 338966008778 putative metal binding site [ion binding]; other site 338966008779 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 338966008780 active site 338966008781 catalytic site [active] 338966008782 substrate binding site [chemical binding]; other site 338966008783 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 338966008784 active site 338966008785 DNA binding site [nucleotide binding] 338966008786 catalytic site [active] 338966008787 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 338966008788 BON domain; Region: BON; cl02771 338966008789 BON domain; Region: BON; cl02771 338966008790 Adenosine specific kinase; Region: Adenosine_kin; cl00796 338966008791 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 338966008792 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 338966008793 S-adenosylmethionine binding site [chemical binding]; other site 338966008794 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 338966008795 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 338966008796 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966008797 Walker A/P-loop; other site 338966008798 ATP binding site [chemical binding]; other site 338966008799 Q-loop/lid; other site 338966008800 ABC transporter signature motif; other site 338966008801 Walker B; other site 338966008802 D-loop; other site 338966008803 H-loop/switch region; other site 338966008804 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 338966008805 dimer interface [polypeptide binding]; other site 338966008806 conserved gate region; other site 338966008807 putative PBP binding loops; other site 338966008808 ABC-ATPase subunit interface; other site 338966008809 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 338966008810 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 338966008811 dimer interface [polypeptide binding]; other site 338966008812 conserved gate region; other site 338966008813 putative PBP binding loops; other site 338966008814 ABC-ATPase subunit interface; other site 338966008815 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 338966008816 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 338966008817 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966008818 phosphoenolpyruvate synthase; Validated; Region: PRK06464 338966008819 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966008820 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 338966008821 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 338966008822 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 338966008823 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 338966008824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008825 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 338966008826 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966008827 Integrase core domain; Region: rve; cl01316 338966008828 Integrase core domain; Region: rve_3; cl15866 338966008829 Helix-turn-helix domains; Region: HTH; cl00088 338966008830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966008831 Integrase core domain; Region: rve; cl01316 338966008832 Integrase core domain; Region: rve_3; cl15866 338966008833 transposase/IS protein; Provisional; Region: PRK09183 338966008834 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 338966008835 Walker A motif; other site 338966008836 ATP binding site [chemical binding]; other site 338966008837 Walker B motif; other site 338966008838 arginine finger; other site 338966008839 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966008840 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966008841 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 338966008842 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008843 MatE; Region: MatE; cl10513 338966008844 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 338966008845 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966008846 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 338966008847 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966008848 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 338966008849 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 338966008850 homodimer interface [polypeptide binding]; other site 338966008851 NAD binding pocket [chemical binding]; other site 338966008852 ATP binding pocket [chemical binding]; other site 338966008853 Mg binding site [ion binding]; other site 338966008854 active-site loop [active] 338966008855 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 338966008856 trimer interface [polypeptide binding]; other site 338966008857 active site 338966008858 substrate binding site [chemical binding]; other site 338966008859 CoA binding site [chemical binding]; other site 338966008860 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338966008861 AMP-binding enzyme; Region: AMP-binding; cl15778 338966008862 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966008863 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 338966008864 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 338966008865 active site 338966008866 dimer interface [polypeptide binding]; other site 338966008867 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 338966008868 Ligand Binding Site [chemical binding]; other site 338966008869 Molecular Tunnel; other site 338966008870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008871 short chain dehydrogenase; Provisional; Region: PRK08251 338966008872 NAD(P) binding site [chemical binding]; other site 338966008873 active site 338966008874 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966008875 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 338966008876 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 338966008877 inhibitor-cofactor binding pocket; inhibition site 338966008878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966008879 catalytic residue [active] 338966008880 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 338966008881 putative trimer interface [polypeptide binding]; other site 338966008882 putative active site [active] 338966008883 putative substrate binding site [chemical binding]; other site 338966008884 putative CoA binding site [chemical binding]; other site 338966008885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338966008886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008887 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 338966008888 Bacterial sugar transferase; Region: Bac_transf; cl00939 338966008889 AAA domain; Region: AAA_31; pfam13614 338966008890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008891 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966008892 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 338966008893 Walker A motif; other site 338966008894 ATP binding site [chemical binding]; other site 338966008895 Walker B motif; other site 338966008896 arginine finger; other site 338966008897 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 338966008898 Chain length determinant protein; Region: Wzz; cl15801 338966008899 Chain length determinant protein; Region: Wzz; cl15801 338966008900 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966008901 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966008902 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 338966008903 RNA/DNA binding site [nucleotide binding]; other site 338966008904 RRM dimerization site [polypeptide binding]; other site 338966008905 Recombination protein O N terminal; Region: RecO_N; cl15812 338966008906 DNA repair protein RecO; Region: reco; TIGR00613 338966008907 Recombination protein O C terminal; Region: RecO_C; pfam02565 338966008908 FtsH Extracellular; Region: FtsH_ext; pfam06480 338966008909 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338966008910 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 338966008911 Walker B motif; other site 338966008912 arginine finger; other site 338966008913 Peptidase family M41; Region: Peptidase_M41; pfam01434 338966008914 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 338966008915 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 338966008916 tetramerization interface [polypeptide binding]; other site 338966008917 NAD(P) binding site [chemical binding]; other site 338966008918 catalytic residues [active] 338966008919 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 338966008920 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966008921 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 338966008922 motif II; other site 338966008923 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 338966008924 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966008925 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 338966008926 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 338966008927 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 338966008928 catalytic triad [active] 338966008929 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966008930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966008931 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 338966008932 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 338966008933 NAD binding site [chemical binding]; other site 338966008934 homotetramer interface [polypeptide binding]; other site 338966008935 homodimer interface [polypeptide binding]; other site 338966008936 substrate binding site [chemical binding]; other site 338966008937 active site 338966008938 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 338966008939 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 338966008940 HflX GTPase family; Region: HflX; cd01878 338966008941 G1 box; other site 338966008942 GTP/Mg2+ binding site [chemical binding]; other site 338966008943 Switch I region; other site 338966008944 G2 box; other site 338966008945 G3 box; other site 338966008946 Switch II region; other site 338966008947 G4 box; other site 338966008948 G5 box; other site 338966008949 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966008950 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 338966008951 putative active site [active] 338966008952 putative metal binding site [ion binding]; other site 338966008953 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 338966008954 Domain of unknown function DUF20; Region: UPF0118; pfam01594 338966008955 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 338966008956 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 338966008957 metal-binding site [ion binding] 338966008958 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966008959 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 338966008960 metal-binding site [ion binding] 338966008961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966008962 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966008963 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 338966008964 dimer interface [polypeptide binding]; other site 338966008965 catalytic triad [active] 338966008966 peroxidatic and resolving cysteines [active] 338966008967 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 338966008968 putative active site [active] 338966008969 putative CoA binding site [chemical binding]; other site 338966008970 nudix motif; other site 338966008971 metal binding site [ion binding]; metal-binding site 338966008972 hypothetical protein; Provisional; Region: PRK11239 338966008973 Protein of unknown function, DUF480; Region: DUF480; cl01209 338966008974 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 338966008975 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 338966008976 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 338966008977 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 338966008978 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 338966008979 Walker A/P-loop; other site 338966008980 ATP binding site [chemical binding]; other site 338966008981 Q-loop/lid; other site 338966008982 ABC transporter signature motif; other site 338966008983 Walker B; other site 338966008984 D-loop; other site 338966008985 H-loop/switch region; other site 338966008986 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966008987 Walker A/P-loop; other site 338966008988 ATP binding site [chemical binding]; other site 338966008989 Q-loop/lid; other site 338966008990 ABC transporter signature motif; other site 338966008991 Walker B; other site 338966008992 D-loop; other site 338966008993 H-loop/switch region; other site 338966008994 ABC-2 type transporter; Region: ABC2_membrane; cl11417 338966008995 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 338966008996 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 338966008997 ABC-2 type transporter; Region: ABC2_membrane; cl11417 338966008998 GAF domain; Region: GAF_2; pfam13185 338966008999 GAF domain; Region: GAF; cl15785 338966009000 PAS domain S-box; Region: sensory_box; TIGR00229 338966009001 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 338966009002 putative active site [active] 338966009003 heme pocket [chemical binding]; other site 338966009004 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009005 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 338966009006 dimer interface [polypeptide binding]; other site 338966009007 phosphorylation site [posttranslational modification] 338966009008 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 338966009009 ATP binding site [chemical binding]; other site 338966009010 Mg2+ binding site [ion binding]; other site 338966009011 G-X-G motif; other site 338966009012 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009013 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 338966009014 active site 338966009015 phosphorylation site [posttranslational modification] 338966009016 intermolecular recognition site; other site 338966009017 dimerization interface [polypeptide binding]; other site 338966009018 SlyX; Region: SlyX; cl01090 338966009019 tellurite resistance protein TehB; Provisional; Region: PRK12335 338966009020 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 338966009021 S-adenosylmethionine binding site [chemical binding]; other site 338966009022 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 338966009023 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 338966009024 FMN binding site [chemical binding]; other site 338966009025 active site 338966009026 catalytic residues [active] 338966009027 substrate binding site [chemical binding]; other site 338966009028 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 338966009029 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 338966009030 Glycerate kinase family; Region: Gly_kinase; cl00841 338966009031 Predicted membrane protein [Function unknown]; Region: COG2860 338966009032 UPF0126 domain; Region: UPF0126; pfam03458 338966009033 UPF0126 domain; Region: UPF0126; pfam03458 338966009034 Phosphotransferase enzyme family; Region: APH; pfam01636 338966009035 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966009036 active site 338966009037 ATP binding site [chemical binding]; other site 338966009038 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16917 338966009039 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 338966009040 putative peptidoglycan binding site; other site 338966009041 Domain of unknown function (DUF309); Region: DUF309; cl00667 338966009042 FRG domain; Region: FRG; cl07460 338966009043 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 338966009044 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 338966009045 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 338966009046 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 338966009047 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 338966009048 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966009049 Isochorismatase family; Region: Isochorismatase; pfam00857 338966009050 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 338966009051 catalytic triad [active] 338966009052 dimer interface [polypeptide binding]; other site 338966009053 conserved cis-peptide bond; other site 338966009054 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338966009055 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966009056 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 338966009057 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 338966009058 motif II; other site 338966009059 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 338966009060 active site 338966009061 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 338966009062 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 338966009063 Walker A/P-loop; other site 338966009064 ATP binding site [chemical binding]; other site 338966009065 Q-loop/lid; other site 338966009066 ABC transporter signature motif; other site 338966009067 Walker B; other site 338966009068 D-loop; other site 338966009069 H-loop/switch region; other site 338966009070 Smr domain; Region: Smr; cl02619 338966009071 RF-1 domain; Region: RF-1; cl02875 338966009072 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 338966009073 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 338966009074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966009075 putative acyl-acceptor binding pocket; other site 338966009076 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 338966009077 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966009078 active site 338966009079 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338966009080 G1 box; other site 338966009081 GTP/Mg2+ binding site [chemical binding]; other site 338966009082 G2 box; other site 338966009083 Switch I region; other site 338966009084 G3 box; other site 338966009085 Switch II region; other site 338966009086 G4 box; other site 338966009087 G5 box; other site 338966009088 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 338966009089 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 338966009090 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 338966009091 FeS/SAM binding site; other site 338966009092 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966009093 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 338966009094 active site residue [active] 338966009095 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 338966009096 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 338966009097 ATP phosphoribosyltransferase; Region: HisG; cl15266 338966009098 HisG, C-terminal domain; Region: HisG_C; cl06867 338966009099 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966009100 active site 338966009101 NTP binding site [chemical binding]; other site 338966009102 metal binding triad [ion binding]; metal-binding site 338966009103 antibiotic binding site [chemical binding]; other site 338966009104 Protein of unknown function DUF86; Region: DUF86; cl01031 338966009105 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 338966009106 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 338966009107 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 338966009108 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966009109 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 338966009110 RNA binding surface [nucleotide binding]; other site 338966009111 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966009112 active site 338966009113 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 338966009114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009115 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 338966009116 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 338966009117 putative NAD(P) binding site [chemical binding]; other site 338966009118 homodimer interface [polypeptide binding]; other site 338966009119 homotetramer interface [polypeptide binding]; other site 338966009120 active site 338966009121 gamma-glutamyl kinase; Provisional; Region: PRK05429 338966009122 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 338966009123 nucleotide binding site [chemical binding]; other site 338966009124 homotetrameric interface [polypeptide binding]; other site 338966009125 putative phosphate binding site [ion binding]; other site 338966009126 putative allosteric binding site; other site 338966009127 PUA domain; Region: PUA; cl00607 338966009128 GTPase CgtA; Reviewed; Region: obgE; PRK12299 338966009129 GTP1/OBG; Region: GTP1_OBG; pfam01018 338966009130 Obg GTPase; Region: Obg; cd01898 338966009131 G1 box; other site 338966009132 GTP/Mg2+ binding site [chemical binding]; other site 338966009133 Switch I region; other site 338966009134 G2 box; other site 338966009135 G3 box; other site 338966009136 Switch II region; other site 338966009137 G4 box; other site 338966009138 G5 box; other site 338966009139 Putative exonuclease, RdgC; Region: RdgC; cl01122 338966009140 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338966009141 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 338966009142 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 338966009143 protein binding site [polypeptide binding]; other site 338966009144 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 338966009145 protein binding site [polypeptide binding]; other site 338966009146 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 338966009147 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 338966009148 active site 338966009149 phosphorylation site [posttranslational modification] 338966009150 intermolecular recognition site; other site 338966009151 dimerization interface [polypeptide binding]; other site 338966009152 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 338966009153 DNA binding site [nucleotide binding] 338966009154 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 338966009155 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 338966009156 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 338966009157 S-adenosylmethionine binding site [chemical binding]; other site 338966009158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 338966009159 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 338966009160 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 338966009161 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 338966009162 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 338966009163 ATP binding site [chemical binding]; other site 338966009164 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 338966009165 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 338966009166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966009167 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 338966009168 Sm1 motif; other site 338966009169 D1 - D2 interaction site; other site 338966009170 D3 - B interaction site; other site 338966009171 Hfq - Hfq interaction site; other site 338966009172 RNA binding pocket [nucleotide binding]; other site 338966009173 Sm2 motif; other site 338966009174 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 338966009175 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 338966009176 Protein of unknown function (DUF512); Region: DUF512; pfam04459 338966009177 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966009178 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009179 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 338966009180 active site 338966009181 phosphorylation site [posttranslational modification] 338966009182 intermolecular recognition site; other site 338966009183 dimerization interface [polypeptide binding]; other site 338966009184 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 338966009185 dimer interface [polypeptide binding]; other site 338966009186 phosphorylation site [posttranslational modification] 338966009187 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 338966009188 ATP binding site [chemical binding]; other site 338966009189 Mg2+ binding site [ion binding]; other site 338966009190 G-X-G motif; other site 338966009191 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 338966009192 substrate binding site; other site 338966009193 dimer interface; other site 338966009194 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338966009195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966009196 DNA-binding site [nucleotide binding]; DNA binding site 338966009197 FCD domain; Region: FCD; cl11656 338966009198 Ion channel; Region: Ion_trans_2; cl11596 338966009199 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 338966009200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009201 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 338966009202 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 338966009203 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 338966009204 Metal-binding active site; metal-binding site 338966009205 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 338966009206 UDP-glucose-4-epimerase; Region: galE; TIGR01179 338966009207 NAD binding site [chemical binding]; other site 338966009208 homodimer interface [polypeptide binding]; other site 338966009209 active site 338966009210 substrate binding site [chemical binding]; other site 338966009211 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 338966009212 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 338966009213 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 338966009214 active site clefts [active] 338966009215 zinc binding site [ion binding]; other site 338966009216 dimer interface [polypeptide binding]; other site 338966009217 Isochorismatase family; Region: Isochorismatase; pfam00857 338966009218 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 338966009219 catalytic triad [active] 338966009220 conserved cis-peptide bond; other site 338966009221 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 338966009222 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966009223 Helix-turn-helix domains; Region: HTH; cl00088 338966009224 DNA binding site [nucleotide binding] 338966009225 MgtE intracellular N domain; Region: MgtE_N; cl15244 338966009226 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 338966009227 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 338966009228 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966009229 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 338966009230 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966009231 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 338966009232 active site 338966009233 8-oxo-dGMP binding site [chemical binding]; other site 338966009234 nudix motif; other site 338966009235 metal binding site [ion binding]; metal-binding site 338966009236 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 338966009237 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 338966009238 tandem repeat interface [polypeptide binding]; other site 338966009239 oligomer interface [polypeptide binding]; other site 338966009240 active site residues [active] 338966009241 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 338966009242 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 338966009243 catalytic triad [active] 338966009244 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 338966009245 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966009246 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 338966009247 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 338966009248 FIST N domain; Region: FIST; cl10701 338966009249 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966009250 FIST C domain; Region: FIST_C; pfam10442 338966009251 EcsC protein family; Region: EcsC; pfam12787 338966009252 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 338966009253 TM2 domain; Region: TM2; cl00984 338966009254 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 338966009255 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966009256 FeS/SAM binding site; other site 338966009257 CHASE4 domain; Region: CHASE4; cl01308 338966009258 PAS domain S-box; Region: sensory_box; TIGR00229 338966009259 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 338966009260 putative active site [active] 338966009261 heme pocket [chemical binding]; other site 338966009262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966009263 metal binding site [ion binding]; metal-binding site 338966009264 active site 338966009265 I-site; other site 338966009266 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 338966009267 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 338966009268 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 338966009269 dimerization interface [polypeptide binding]; other site 338966009270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966009271 dimer interface [polypeptide binding]; other site 338966009272 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966009273 putative CheW interface [polypeptide binding]; other site 338966009274 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966009275 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 338966009276 catalytic triad [active] 338966009277 YceI-like domain; Region: YceI; cl01001 338966009278 NMT1-like family; Region: NMT1_2; cl15260 338966009279 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966009280 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009281 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 338966009282 dimer interface [polypeptide binding]; other site 338966009283 phosphorylation site [posttranslational modification] 338966009284 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 338966009285 ATP binding site [chemical binding]; other site 338966009286 Mg2+ binding site [ion binding]; other site 338966009287 G-X-G motif; other site 338966009288 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 338966009289 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966009290 active site 338966009291 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 338966009292 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 338966009293 S-adenosylmethionine binding site [chemical binding]; other site 338966009294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966009295 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 338966009296 ATP binding site [chemical binding]; other site 338966009297 Mg2+ binding site [ion binding]; other site 338966009298 G-X-G motif; other site 338966009299 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 338966009300 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 338966009301 substrate binding site [chemical binding]; other site 338966009302 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009303 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 338966009304 active site 338966009305 phosphorylation site [posttranslational modification] 338966009306 intermolecular recognition site; other site 338966009307 dimerization interface [polypeptide binding]; other site 338966009308 PAS domain S-box; Region: sensory_box; TIGR00229 338966009309 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 338966009310 putative active site [active] 338966009311 heme pocket [chemical binding]; other site 338966009312 GAF domain; Region: GAF_2; pfam13185 338966009313 GAF domain; Region: GAF; cl15785 338966009314 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009315 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 338966009316 putative active site [active] 338966009317 heme pocket [chemical binding]; other site 338966009318 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 338966009319 dimer interface [polypeptide binding]; other site 338966009320 phosphorylation site [posttranslational modification] 338966009321 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 338966009322 ATP binding site [chemical binding]; other site 338966009323 Mg2+ binding site [ion binding]; other site 338966009324 G-X-G motif; other site 338966009325 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009326 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 338966009327 active site 338966009328 phosphorylation site [posttranslational modification] 338966009329 intermolecular recognition site; other site 338966009330 dimerization interface [polypeptide binding]; other site 338966009331 hypothetical protein; Provisional; Region: PRK13560 338966009332 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 338966009333 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 338966009334 putative active site [active] 338966009335 heme pocket [chemical binding]; other site 338966009336 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 338966009337 putative active site [active] 338966009338 heme pocket [chemical binding]; other site 338966009339 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 338966009340 putative active site [active] 338966009341 heme pocket [chemical binding]; other site 338966009342 Histidine kinase; Region: HisKA_2; cl06527 338966009343 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 338966009344 ATP binding site [chemical binding]; other site 338966009345 Mg2+ binding site [ion binding]; other site 338966009346 G-X-G motif; other site 338966009347 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 338966009348 active site 338966009349 phosphorylation site [posttranslational modification] 338966009350 intermolecular recognition site; other site 338966009351 dimerization interface [polypeptide binding]; other site 338966009352 PAS domain S-box; Region: sensory_box; TIGR00229 338966009353 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 338966009354 putative active site [active] 338966009355 heme pocket [chemical binding]; other site 338966009356 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966009357 Histidine kinase; Region: HisKA_2; cl06527 338966009358 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 338966009359 ATP binding site [chemical binding]; other site 338966009360 Mg2+ binding site [ion binding]; other site 338966009361 G-X-G motif; other site 338966009362 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009363 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 338966009364 active site 338966009365 phosphorylation site [posttranslational modification] 338966009366 intermolecular recognition site; other site 338966009367 dimerization interface [polypeptide binding]; other site 338966009368 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338966009369 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 338966009370 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 338966009371 dimer interface [polypeptide binding]; other site 338966009372 phosphorylation site [posttranslational modification] 338966009373 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 338966009374 ATP binding site [chemical binding]; other site 338966009375 Mg2+ binding site [ion binding]; other site 338966009376 G-X-G motif; other site 338966009377 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 338966009378 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 338966009379 homodimer interface [polypeptide binding]; other site 338966009380 oligonucleotide binding site [chemical binding]; other site 338966009381 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 338966009382 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 338966009383 dimer interface [polypeptide binding]; other site 338966009384 putative anticodon binding site; other site 338966009385 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 338966009386 motif 1; other site 338966009387 active site 338966009388 motif 2; other site 338966009389 motif 3; other site 338966009390 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 338966009391 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966009392 FtsX-like permease family; Region: FtsX; cl15850 338966009393 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 338966009394 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 338966009395 Walker A/P-loop; other site 338966009396 ATP binding site [chemical binding]; other site 338966009397 Q-loop/lid; other site 338966009398 ABC transporter signature motif; other site 338966009399 Walker B; other site 338966009400 D-loop; other site 338966009401 H-loop/switch region; other site 338966009402 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 338966009403 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 338966009404 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 338966009405 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 338966009406 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 338966009407 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 338966009408 Surface antigen; Region: Bac_surface_Ag; cl03097 338966009409 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 338966009410 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 338966009411 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 338966009412 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 338966009413 trimer interface [polypeptide binding]; other site 338966009414 active site 338966009415 UDP-GlcNAc binding site [chemical binding]; other site 338966009416 lipid binding site [chemical binding]; lipid-binding site 338966009417 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 338966009418 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 338966009419 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 338966009420 active site 338966009421 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338966009422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009423 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 338966009424 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 338966009425 inhibitor-cofactor binding pocket; inhibition site 338966009426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009427 catalytic residue [active] 338966009428 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 338966009429 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 338966009430 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 338966009431 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 338966009432 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 338966009433 Walker A/P-loop; other site 338966009434 ATP binding site [chemical binding]; other site 338966009435 Q-loop/lid; other site 338966009436 ABC transporter signature motif; other site 338966009437 Walker B; other site 338966009438 D-loop; other site 338966009439 H-loop/switch region; other site 338966009440 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 338966009441 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 338966009442 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338966009443 putative acyl-acceptor binding pocket; other site 338966009444 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 338966009445 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 338966009446 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 338966009447 Trm112p-like protein; Region: Trm112p; cl01066 338966009448 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 338966009449 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 338966009450 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966009451 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 338966009452 putative active site [active] 338966009453 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 338966009454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966009455 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 338966009456 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 338966009457 putative ATP binding site [chemical binding]; other site 338966009458 putative substrate interface [chemical binding]; other site 338966009459 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 338966009460 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 338966009461 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966009462 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966009463 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966009464 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 338966009465 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 338966009466 putative active site pocket [active] 338966009467 4-fold oligomerization interface [polypeptide binding]; other site 338966009468 metal binding residues [ion binding]; metal-binding site 338966009469 3-fold/trimer interface [polypeptide binding]; other site 338966009470 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 338966009471 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 338966009472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009473 homodimer interface [polypeptide binding]; other site 338966009474 catalytic residue [active] 338966009475 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 338966009476 histidinol dehydrogenase; Region: hisD; TIGR00069 338966009477 NAD binding site [chemical binding]; other site 338966009478 dimerization interface [polypeptide binding]; other site 338966009479 product binding site; other site 338966009480 substrate binding site [chemical binding]; other site 338966009481 zinc binding site [ion binding]; other site 338966009482 catalytic residues [active] 338966009483 ATP phosphoribosyltransferase; Region: HisG; cl15266 338966009484 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 338966009485 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 338966009486 hinge; other site 338966009487 active site 338966009488 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 338966009489 PAS fold; Region: PAS_3; pfam08447 338966009490 GAF domain; Region: GAF; cl15785 338966009491 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 338966009492 PAS domain; Region: PAS_9; pfam13426 338966009493 putative active site [active] 338966009494 heme pocket [chemical binding]; other site 338966009495 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 338966009496 dimer interface [polypeptide binding]; other site 338966009497 phosphorylation site [posttranslational modification] 338966009498 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 338966009499 ATP binding site [chemical binding]; other site 338966009500 Mg2+ binding site [ion binding]; other site 338966009501 G-X-G motif; other site 338966009502 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009503 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 338966009504 active site 338966009505 phosphorylation site [posttranslational modification] 338966009506 intermolecular recognition site; other site 338966009507 dimerization interface [polypeptide binding]; other site 338966009508 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966009509 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 338966009510 active site 338966009511 phosphorylation site [posttranslational modification] 338966009512 intermolecular recognition site; other site 338966009513 dimerization interface [polypeptide binding]; other site 338966009514 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966009515 Zn2+ binding site [ion binding]; other site 338966009516 Mg2+ binding site [ion binding]; other site 338966009517 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 338966009518 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 338966009519 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966009520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966009521 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966009522 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 338966009523 DNA binding residues [nucleotide binding] 338966009524 DNA primase; Validated; Region: dnaG; PRK05667 338966009525 CHC2 zinc finger; Region: zf-CHC2; cl15369 338966009526 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 338966009527 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 338966009528 active site 338966009529 metal binding site [ion binding]; metal-binding site 338966009530 interdomain interaction site; other site 338966009531 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 338966009532 Colicin V production protein; Region: Colicin_V; cl00567 338966009533 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 338966009534 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 338966009535 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 338966009536 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 338966009537 substrate binding site [chemical binding]; other site 338966009538 glutamase interaction surface [polypeptide binding]; other site 338966009539 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 338966009540 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 338966009541 catalytic residues [active] 338966009542 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 338966009543 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 338966009544 putative active site [active] 338966009545 oxyanion strand; other site 338966009546 catalytic triad [active] 338966009547 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 338966009548 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966009549 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966009550 dimer interface [polypeptide binding]; other site 338966009551 putative CheW interface [polypeptide binding]; other site 338966009552 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; cd00522 338966009553 octamerization interface [polypeptide binding]; other site 338966009554 diferric-oxygen binding site [ion binding]; other site 338966009555 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 338966009556 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 338966009557 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 338966009558 dimer interface [polypeptide binding]; other site 338966009559 motif 1; other site 338966009560 active site 338966009561 motif 2; other site 338966009562 motif 3; other site 338966009563 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 338966009564 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 338966009565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009566 homodimer interface [polypeptide binding]; other site 338966009567 catalytic residue [active] 338966009568 dihydrodipicolinate reductase; Provisional; Region: PRK00048 338966009569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009570 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 338966009571 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 338966009572 dihydrodipicolinate synthase; Region: dapA; TIGR00674 338966009573 dimer interface [polypeptide binding]; other site 338966009574 active site 338966009575 catalytic residue [active] 338966009576 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 338966009577 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966009578 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966009579 periplasmic folding chaperone; Provisional; Region: PRK10788 338966009580 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 338966009581 ATP binding site [chemical binding]; other site 338966009582 active site 338966009583 substrate binding site [chemical binding]; other site 338966009584 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 338966009585 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 338966009586 octamerization interface [polypeptide binding]; other site 338966009587 diferric-oxygen binding site [ion binding]; other site 338966009588 AAA domain; Region: AAA_32; pfam13654 338966009589 ATP-dependent protease Lon; Provisional; Region: PRK13765 338966009590 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966009591 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966009592 Zn2+ binding site [ion binding]; other site 338966009593 Mg2+ binding site [ion binding]; other site 338966009594 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 338966009595 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 338966009596 nucleotide binding pocket [chemical binding]; other site 338966009597 K-X-D-G motif; other site 338966009598 catalytic site [active] 338966009599 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 338966009600 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 338966009601 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 338966009602 Dimer interface [polypeptide binding]; other site 338966009603 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966009604 zinc metallopeptidase RseP; Provisional; Region: PRK10779 338966009605 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966009606 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 338966009607 putative dimer interface [polypeptide binding]; other site 338966009608 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 338966009609 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 338966009610 FMN binding site [chemical binding]; other site 338966009611 active site 338966009612 catalytic residues [active] 338966009613 substrate binding site [chemical binding]; other site 338966009614 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009615 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 338966009616 putative active site [active] 338966009617 heme pocket [chemical binding]; other site 338966009618 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 338966009619 ATP binding site [chemical binding]; other site 338966009620 Mg2+ binding site [ion binding]; other site 338966009621 G-X-G motif; other site 338966009622 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966009623 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 338966009624 active site 338966009625 phosphorylation site [posttranslational modification] 338966009626 intermolecular recognition site; other site 338966009627 dimerization interface [polypeptide binding]; other site 338966009628 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 338966009629 Walker A motif; other site 338966009630 ATP binding site [chemical binding]; other site 338966009631 Walker B motif; other site 338966009632 arginine finger; other site 338966009633 Helix-turn-helix domains; Region: HTH; cl00088 338966009634 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 338966009635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009636 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 338966009637 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 338966009638 carboxyltransferase (CT) interaction site; other site 338966009639 biotinylation site [posttranslational modification]; other site 338966009640 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 338966009641 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966009642 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 338966009643 oxaloacetate decarboxylase; Provisional; Region: PRK12330 338966009644 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966009645 active site 338966009646 catalytic residues [active] 338966009647 metal binding site [ion binding]; metal-binding site 338966009648 homodimer binding site [polypeptide binding]; other site 338966009649 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 338966009650 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 338966009651 23S rRNA interface [nucleotide binding]; other site 338966009652 L3 interface [polypeptide binding]; other site 338966009653 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 338966009654 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 338966009655 Amidase; Region: Amidase; cl11426 338966009656 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 338966009657 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 338966009658 GatB domain; Region: GatB_Yqey; cl11497 338966009659 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009660 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 338966009661 active site 338966009662 phosphorylation site [posttranslational modification] 338966009663 intermolecular recognition site; other site 338966009664 dimerization interface [polypeptide binding]; other site 338966009665 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 338966009666 putative binding surface; other site 338966009667 active site 338966009668 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966009669 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 338966009670 ATP binding site [chemical binding]; other site 338966009671 Mg2+ binding site [ion binding]; other site 338966009672 G-X-G motif; other site 338966009673 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 338966009674 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 338966009675 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 338966009676 Protein of unknown function (DUF520); Region: DUF520; cl00723 338966009677 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 338966009678 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966009679 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 338966009680 FeS/SAM binding site; other site 338966009681 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 338966009682 Uncharacterized conserved protein [Function unknown]; Region: COG2006 338966009683 Domain of unknown function (DUF362); Region: DUF362; pfam04015 338966009684 4Fe-4S binding domain; Region: Fer4; cl02805 338966009685 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 338966009686 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 338966009687 FMN binding site [chemical binding]; other site 338966009688 substrate binding site [chemical binding]; other site 338966009689 putative catalytic residue [active] 338966009690 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 338966009691 active site 338966009692 Acyl transferase domain; Region: Acyl_transf_1; cl08282 338966009693 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966009694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966009695 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966009696 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966009697 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966009698 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 338966009699 putative NADP binding site [chemical binding]; other site 338966009700 active site 338966009701 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966009702 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 338966009703 active site 338966009704 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 338966009705 active site 338966009706 Acyl transferase domain; Region: Acyl_transf_1; cl08282 338966009707 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966009708 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 338966009709 active site 2 [active] 338966009710 active site 1 [active] 338966009711 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 338966009712 active site 1 [active] 338966009713 dimer interface [polypeptide binding]; other site 338966009714 active site 2 [active] 338966009715 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 338966009716 active site 2 [active] 338966009717 active site 1 [active] 338966009718 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 338966009719 active site 1 [active] 338966009720 dimer interface [polypeptide binding]; other site 338966009721 active site 2 [active] 338966009722 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 338966009723 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 338966009724 active site 338966009725 haloalkane dehalogenase; Provisional; Region: PRK03592 338966009726 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 338966009727 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 338966009728 putative CheA interaction surface; other site 338966009729 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966009730 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 338966009731 dimerization interface [polypeptide binding]; other site 338966009732 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966009733 dimer interface [polypeptide binding]; other site 338966009734 putative CheW interface [polypeptide binding]; other site 338966009735 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966009736 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 338966009737 active site 338966009738 phosphorylation site [posttranslational modification] 338966009739 intermolecular recognition site; other site 338966009740 dimerization interface [polypeptide binding]; other site 338966009741 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 338966009742 Walker A motif; other site 338966009743 ATP binding site [chemical binding]; other site 338966009744 Walker B motif; other site 338966009745 arginine finger; other site 338966009746 Helix-turn-helix domains; Region: HTH; cl00088 338966009747 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966009748 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 338966009749 Walker A motif; other site 338966009750 ATP binding site [chemical binding]; other site 338966009751 Walker B motif; other site 338966009752 arginine finger; other site 338966009753 Helix-turn-helix domains; Region: HTH; cl00088 338966009754 acetoin reductases; Region: 23BDH; TIGR02415 338966009755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009756 NAD(P) binding site [chemical binding]; other site 338966009757 active site 338966009758 Sensory domain found in PocR; Region: PocR; pfam10114 338966009759 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966009760 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 338966009761 Ligand Binding Site [chemical binding]; other site 338966009762 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 338966009763 Ligand Binding Site [chemical binding]; other site 338966009764 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 338966009765 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 338966009766 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 338966009767 putative metal binding site [ion binding]; other site 338966009768 peptide synthase; Provisional; Region: PRK09274 338966009769 AMP-binding enzyme; Region: AMP-binding; cl15778 338966009770 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 338966009771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009772 NAD(P) binding site [chemical binding]; other site 338966009773 active site 338966009774 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 338966009775 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 338966009776 Recombinase; Region: Recombinase; pfam07508 338966009777 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966009778 integrase; Provisional; Region: PRK09692 338966009779 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 338966009780 active site 338966009781 Int/Topo IB signature motif; other site 338966009782 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 338966009783 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 338966009784 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 338966009785 non-specific DNA binding site [nucleotide binding]; other site 338966009786 salt bridge; other site 338966009787 sequence-specific DNA binding site [nucleotide binding]; other site 338966009788 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 338966009789 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 338966009790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966009791 Walker A motif; other site 338966009792 ATP binding site [chemical binding]; other site 338966009793 Walker B motif; other site 338966009794 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 338966009795 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 338966009796 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 338966009797 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 338966009798 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966009799 Cysteine-rich domain; Region: CCG; pfam02754 338966009800 Cysteine-rich domain; Region: CCG; pfam02754 338966009801 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 338966009802 HDOD domain; Region: HDOD; pfam08668 338966009803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966009804 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338966009805 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 338966009806 ATP binding site [chemical binding]; other site 338966009807 Mg2+ binding site [ion binding]; other site 338966009808 G-X-G motif; other site 338966009809 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009810 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 338966009811 active site 338966009812 phosphorylation site [posttranslational modification] 338966009813 intermolecular recognition site; other site 338966009814 dimerization interface [polypeptide binding]; other site 338966009815 PAS domain S-box; Region: sensory_box; TIGR00229 338966009816 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 338966009817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966009818 metal binding site [ion binding]; metal-binding site 338966009819 active site 338966009820 I-site; other site 338966009821 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 338966009822 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966009823 FIST N domain; Region: FIST; cl10701 338966009824 FIST C domain; Region: FIST_C; pfam10442 338966009825 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966009826 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 338966009827 Heme NO binding; Region: HNOB; cl15268 338966009828 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966009829 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 338966009830 P-loop; other site 338966009831 Magnesium ion binding site [ion binding]; other site 338966009832 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 338966009833 Magnesium ion binding site [ion binding]; other site 338966009834 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966009835 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338966009836 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 338966009837 dimerization interface [polypeptide binding]; other site 338966009838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966009839 dimer interface [polypeptide binding]; other site 338966009840 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966009841 putative CheW interface [polypeptide binding]; other site 338966009842 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 338966009843 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 338966009844 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 338966009845 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 338966009846 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966009847 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 338966009848 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 338966009849 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966009850 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009851 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 338966009852 putative active site [active] 338966009853 heme pocket [chemical binding]; other site 338966009854 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 338966009855 dimer interface [polypeptide binding]; other site 338966009856 phosphorylation site [posttranslational modification] 338966009857 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 338966009858 ATP binding site [chemical binding]; other site 338966009859 Mg2+ binding site [ion binding]; other site 338966009860 G-X-G motif; other site 338966009861 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009862 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 338966009863 active site 338966009864 phosphorylation site [posttranslational modification] 338966009865 intermolecular recognition site; other site 338966009866 dimerization interface [polypeptide binding]; other site 338966009867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966009868 I-site; other site 338966009869 active site 338966009870 metal binding site [ion binding]; metal-binding site 338966009871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 338966009872 SEC-C motif; Region: SEC-C; pfam02810 338966009873 Transposase domain (DUF772); Region: DUF772; pfam05598 338966009874 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966009875 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966009876 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 338966009877 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 338966009878 active site 338966009879 phosphorylation site [posttranslational modification] 338966009880 intermolecular recognition site; other site 338966009881 dimerization interface [polypeptide binding]; other site 338966009882 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 338966009883 DNA binding site [nucleotide binding] 338966009884 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 338966009885 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 338966009886 dimerization interface [polypeptide binding]; other site 338966009887 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966009888 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 338966009889 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 338966009890 dimer interface [polypeptide binding]; other site 338966009891 phosphorylation site [posttranslational modification] 338966009892 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 338966009893 ATP binding site [chemical binding]; other site 338966009894 Mg2+ binding site [ion binding]; other site 338966009895 G-X-G motif; other site 338966009896 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 338966009897 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 338966009898 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 338966009899 structural tetrad; other site 338966009900 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 338966009901 dimer interface [polypeptide binding]; other site 338966009902 conserved gate region; other site 338966009903 putative PBP binding loops; other site 338966009904 ABC-ATPase subunit interface; other site 338966009905 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 338966009906 ABC-ATPase subunit interface; other site 338966009907 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 338966009908 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 338966009909 dimer interface [polypeptide binding]; other site 338966009910 conserved gate region; other site 338966009911 putative PBP binding loops; other site 338966009912 ABC-ATPase subunit interface; other site 338966009913 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 338966009914 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 338966009915 Walker A/P-loop; other site 338966009916 ATP binding site [chemical binding]; other site 338966009917 Q-loop/lid; other site 338966009918 ABC transporter signature motif; other site 338966009919 Walker B; other site 338966009920 D-loop; other site 338966009921 H-loop/switch region; other site 338966009922 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 338966009923 PhoU domain; Region: PhoU; pfam01895 338966009924 PhoU domain; Region: PhoU; pfam01895 338966009925 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 338966009926 PAS domain; Region: PAS_9; pfam13426 338966009927 Histidine kinase; Region: HisKA_3; pfam07730 338966009928 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 338966009929 ATP binding site [chemical binding]; other site 338966009930 Mg2+ binding site [ion binding]; other site 338966009931 G-X-G motif; other site 338966009932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966009933 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 338966009934 active site 338966009935 phosphorylation site [posttranslational modification] 338966009936 intermolecular recognition site; other site 338966009937 dimerization interface [polypeptide binding]; other site 338966009938 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 338966009939 DNA binding residues [nucleotide binding] 338966009940 dimerization interface [polypeptide binding]; other site 338966009941 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 338966009942 PAS domain; Region: PAS_9; pfam13426 338966009943 putative active site [active] 338966009944 heme pocket [chemical binding]; other site 338966009945 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 338966009946 PAS domain; Region: PAS_9; pfam13426 338966009947 putative active site [active] 338966009948 heme pocket [chemical binding]; other site 338966009949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966009950 metal binding site [ion binding]; metal-binding site 338966009951 active site 338966009952 I-site; other site 338966009953 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 338966009954 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 338966009955 CheB methylesterase; Region: CheB_methylest; pfam01339 338966009956 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 338966009957 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966009958 PAS domain; Region: PAS_10; pfam13596 338966009959 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 338966009960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966009961 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 338966009962 dimer interface [polypeptide binding]; other site 338966009963 phosphorylation site [posttranslational modification] 338966009964 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 338966009965 ATP binding site [chemical binding]; other site 338966009966 Mg2+ binding site [ion binding]; other site 338966009967 G-X-G motif; other site 338966009968 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009969 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 338966009970 active site 338966009971 phosphorylation site [posttranslational modification] 338966009972 intermolecular recognition site; other site 338966009973 dimerization interface [polypeptide binding]; other site 338966009974 argininosuccinate lyase; Provisional; Region: PRK00855 338966009975 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 338966009976 active sites [active] 338966009977 tetramer interface [polypeptide binding]; other site 338966009978 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 338966009979 nudix motif; other site 338966009980 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 338966009981 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 338966009982 ANP binding site [chemical binding]; other site 338966009983 Substrate Binding Site II [chemical binding]; other site 338966009984 Substrate Binding Site I [chemical binding]; other site 338966009985 ornithine carbamoyltransferase; Provisional; Region: PRK00779 338966009986 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338966009987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009988 acetylornithine aminotransferase; Provisional; Region: PRK02627 338966009989 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 338966009990 inhibitor-cofactor binding pocket; inhibition site 338966009991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009992 catalytic residue [active] 338966009993 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 338966009994 homohexameric interface [polypeptide binding]; other site 338966009995 feedback inhibition sensing region; other site 338966009996 nucleotide binding site [chemical binding]; other site 338966009997 N-acetyl-L-glutamate binding site [chemical binding]; other site 338966009998 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009999 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 338966010000 active site 338966010001 phosphorylation site [posttranslational modification] 338966010002 intermolecular recognition site; other site 338966010003 dimerization interface [polypeptide binding]; other site 338966010004 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 338966010005 dimer interface [polypeptide binding]; other site 338966010006 phosphorylation site [posttranslational modification] 338966010007 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 338966010008 ATP binding site [chemical binding]; other site 338966010009 Mg2+ binding site [ion binding]; other site 338966010010 G-X-G motif; other site 338966010011 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 338966010012 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 338966010013 motif 1; other site 338966010014 active site 338966010015 motif 2; other site 338966010016 motif 3; other site 338966010017 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 338966010018 DHHA1 domain; Region: DHHA1; pfam02272 338966010019 RecX family; Region: RecX; cl00936 338966010020 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 338966010021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010022 Walker A motif; other site 338966010023 ATP binding site [chemical binding]; other site 338966010024 Walker B motif; other site 338966010025 recombinase A; Provisional; Region: recA; PRK09354 338966010026 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 338966010027 hexamer interface [polypeptide binding]; other site 338966010028 Walker A motif; other site 338966010029 ATP binding site [chemical binding]; other site 338966010030 Walker B motif; other site 338966010031 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966010032 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966010033 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966010034 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966010035 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966010036 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966010037 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966010038 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 338966010039 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 338966010040 4Fe-4S binding domain; Region: Fer4; cl02805 338966010041 NADH dehydrogenase; Region: NADHdh; cl00469 338966010042 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 338966010043 catalytic loop [active] 338966010044 iron binding site [ion binding]; other site 338966010045 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 338966010046 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966010047 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; cd00368 338966010048 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 338966010049 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 338966010050 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 338966010051 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 338966010052 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 338966010053 putative dimer interface [polypeptide binding]; other site 338966010054 [2Fe-2S] cluster binding site [ion binding]; other site 338966010055 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966010056 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 338966010057 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966010058 NADH dehydrogenase subunit B; Provisional; Region: PRK14817 338966010059 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966010060 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966010061 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 338966010062 putative peptidoglycan binding site; other site 338966010063 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 338966010064 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 338966010065 Transglycosylase; Region: Transgly; cl07896 338966010066 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966010067 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 338966010068 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 338966010069 RNA binding surface [nucleotide binding]; other site 338966010070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966010071 active site 338966010072 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338966010073 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 338966010074 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 338966010075 protein binding site [polypeptide binding]; other site 338966010076 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 338966010077 Peptidase family M48; Region: Peptidase_M48; cl12018 338966010078 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 338966010079 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 338966010080 conserved cys residue [active] 338966010081 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338966010082 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 338966010083 putative NAD(P) binding site [chemical binding]; other site 338966010084 putative active site [active] 338966010085 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 338966010086 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966010087 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966010088 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 338966010089 motif II; other site 338966010090 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 338966010091 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338966010092 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 338966010093 Walker A motif; other site 338966010094 ATP binding site [chemical binding]; other site 338966010095 Walker B motif; other site 338966010096 arginine finger; other site 338966010097 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 338966010098 Permease; Region: Permease; cl00510 338966010099 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 338966010100 putative active site [active] 338966010101 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 338966010102 S-adenosylmethionine binding site [chemical binding]; other site 338966010103 EVE domain; Region: EVE; cl00728 338966010104 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 338966010105 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010106 Walker A/P-loop; other site 338966010107 ATP binding site [chemical binding]; other site 338966010108 Q-loop/lid; other site 338966010109 ABC transporter signature motif; other site 338966010110 Walker B; other site 338966010111 D-loop; other site 338966010112 H-loop/switch region; other site 338966010113 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 338966010114 mce related protein; Region: MCE; pfam02470 338966010115 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010116 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010117 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010118 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010119 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010120 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010121 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 338966010122 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 338966010123 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966010124 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966010125 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 338966010126 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 338966010127 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966010128 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 338966010129 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966010130 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 338966010131 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 338966010132 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 338966010133 Ion transport protein; Region: Ion_trans; pfam00520 338966010134 Ion channel; Region: Ion_trans_2; cl11596 338966010135 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966010136 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 338966010137 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966010138 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966010139 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966010140 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966010141 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010142 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 338966010143 active site 338966010144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010145 Transposase domain (DUF772); Region: DUF772; pfam05598 338966010146 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010147 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966010148 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 338966010149 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 338966010150 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 338966010151 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 338966010152 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 338966010153 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966010154 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966010155 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 338966010156 macrolide transporter subunit MacA; Provisional; Region: PRK11578 338966010157 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 338966010158 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 338966010159 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966010160 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 338966010161 Walker A/P-loop; other site 338966010162 ATP binding site [chemical binding]; other site 338966010163 Q-loop/lid; other site 338966010164 ABC transporter signature motif; other site 338966010165 Walker B; other site 338966010166 D-loop; other site 338966010167 H-loop/switch region; other site 338966010168 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966010169 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966010170 FtsX-like permease family; Region: FtsX; cl15850 338966010171 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 338966010172 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 338966010173 active site 338966010174 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 338966010175 active site 338966010176 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 338966010177 nucleotide binding site/active site [active] 338966010178 HIT family signature motif; other site 338966010179 catalytic residue [active] 338966010180 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010181 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010182 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010183 PilZ domain; Region: PilZ; cl01260 338966010184 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 338966010185 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 338966010186 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 338966010187 substrate binding site [chemical binding]; other site 338966010188 hexamer interface [polypeptide binding]; other site 338966010189 metal binding site [ion binding]; metal-binding site 338966010190 16S rRNA methyltransferase B; Provisional; Region: PRK14902 338966010191 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 338966010192 putative RNA binding site [nucleotide binding]; other site 338966010193 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 338966010194 S-adenosylmethionine binding site [chemical binding]; other site 338966010195 Peptidase family M48; Region: Peptidase_M48; cl12018 338966010196 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 338966010197 active site 338966010198 multimer interface [polypeptide binding]; other site 338966010199 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010200 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 338966010201 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966010202 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966010203 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 338966010204 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 338966010205 GIY-YIG motif/motif A; other site 338966010206 active site 338966010207 catalytic site [active] 338966010208 putative DNA binding site [nucleotide binding]; other site 338966010209 metal binding site [ion binding]; metal-binding site 338966010210 UvrB/uvrC motif; Region: UVR; pfam02151 338966010211 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 338966010212 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 338966010213 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 338966010214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010215 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_34; cd04693 338966010216 nudix motif; other site 338966010217 FAD binding domain; Region: FAD_binding_4; pfam01565 338966010218 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 338966010219 Maf-like protein; Region: Maf; pfam02545 338966010220 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 338966010221 active site 338966010222 dimer interface [polypeptide binding]; other site 338966010223 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 338966010224 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966010225 catalytic residue [active] 338966010226 Domain of unknown function (DUF389); Region: DUF389; cl00781 338966010227 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966010228 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966010229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010230 metal binding site [ion binding]; metal-binding site 338966010231 active site 338966010232 I-site; other site 338966010233 dihydrodipicolinate reductase; Provisional; Region: PRK00048 338966010234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010235 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 338966010236 trehalose synthase; Region: treS_nterm; TIGR02456 338966010237 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 338966010238 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 338966010239 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 338966010240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 338966010241 Family of unknown function (DUF490); Region: DUF490; pfam04357 338966010242 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 338966010243 Surface antigen; Region: Bac_surface_Ag; cl03097 338966010244 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 338966010245 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 338966010246 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 338966010247 active site 338966010248 catalytic site [active] 338966010249 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 338966010250 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 338966010251 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 338966010252 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 338966010253 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 338966010254 catalytic site [active] 338966010255 active site 338966010256 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 338966010257 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966010258 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 338966010259 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 338966010260 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 338966010261 active site 338966010262 homotetramer interface [polypeptide binding]; other site 338966010263 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966010264 Helix-turn-helix domains; Region: HTH; cl00088 338966010265 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 338966010266 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 338966010267 Cl- selectivity filter; other site 338966010268 Cl- binding residues [ion binding]; other site 338966010269 pore gating glutamate residue; other site 338966010270 dimer interface [polypeptide binding]; other site 338966010271 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966010272 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 338966010273 Predicted GTPase [General function prediction only]; Region: COG0218 338966010274 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 338966010275 G1 box; other site 338966010276 GTP/Mg2+ binding site [chemical binding]; other site 338966010277 Switch I region; other site 338966010278 G2 box; other site 338966010279 G3 box; other site 338966010280 Switch II region; other site 338966010281 G4 box; other site 338966010282 G5 box; other site 338966010283 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 338966010284 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 338966010285 Peptidase family M48; Region: Peptidase_M48; cl12018 338966010286 NMT1-like family; Region: NMT1_2; cl15260 338966010287 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966010288 Sulfate transporter family; Region: Sulfate_transp; cl15842 338966010289 Sulfate transporter family; Region: Sulfate_transp; cl15842 338966010290 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 338966010291 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 338966010292 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966010293 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 338966010294 B12 binding site [chemical binding]; other site 338966010295 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 338966010296 FeS/SAM binding site; other site 338966010297 cell division protein FtsZ; Validated; Region: PRK09330 338966010298 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 338966010299 nucleotide binding site [chemical binding]; other site 338966010300 SulA interaction site; other site 338966010301 cell division protein FtsA; Region: ftsA; TIGR01174 338966010302 Cell division protein FtsA; Region: FtsA; cl11496 338966010303 Cell division protein FtsA; Region: FtsA; cl11496 338966010304 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 338966010305 Cell division protein FtsQ; Region: FtsQ; pfam03799 338966010306 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 338966010307 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 338966010308 ATP-grasp domain; Region: ATP-grasp_4; cl03087 338966010309 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 338966010310 FAD binding domain; Region: FAD_binding_4; pfam01565 338966010311 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 338966010312 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 338966010313 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010314 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010315 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010316 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 338966010317 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 338966010318 active site 338966010319 homodimer interface [polypeptide binding]; other site 338966010320 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 338966010321 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 338966010322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010324 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010325 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 338966010326 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 338966010327 Mg++ binding site [ion binding]; other site 338966010328 putative catalytic motif [active] 338966010329 putative substrate binding site [chemical binding]; other site 338966010330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010331 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 338966010332 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010333 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010334 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 338966010335 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010336 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010337 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010338 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 338966010339 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 338966010340 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 338966010341 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 338966010342 Septum formation initiator; Region: DivIC; cl11433 338966010343 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 338966010344 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966010345 MraZ protein; Region: MraZ; pfam02381 338966010346 cell division protein MraZ; Reviewed; Region: PRK00326 338966010347 MraZ protein; Region: MraZ; pfam02381 338966010348 Bacterial RNase P class A as predicted by Rfam (RF00010), score 369.10 338966010349 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 338966010350 Haemagglutinin; Region: Hemagglutinin; pfam00509 338966010351 Putative zinc ribbon domain; Region: DUF164; pfam02591 338966010352 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 338966010353 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 338966010354 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 338966010355 elongation factor P; Provisional; Region: PRK14578 338966010356 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 338966010357 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 338966010358 RNA binding site [nucleotide binding]; other site 338966010359 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 338966010360 RNA binding site [nucleotide binding]; other site 338966010361 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 338966010362 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 338966010363 active site 338966010364 intersubunit interface [polypeptide binding]; other site 338966010365 zinc binding site [ion binding]; other site 338966010366 Na+ binding site [ion binding]; other site 338966010367 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 338966010368 DHH family; Region: DHH; pfam01368 338966010369 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 338966010370 FOG: CBS domain [General function prediction only]; Region: COG0517 338966010371 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 338966010372 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966010373 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 338966010374 active site 338966010375 NTP binding site [chemical binding]; other site 338966010376 metal binding triad [ion binding]; metal-binding site 338966010377 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 338966010378 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338966010379 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966010380 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 338966010381 DNA-binding site [nucleotide binding]; DNA binding site 338966010382 RNA-binding motif; other site 338966010383 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 338966010384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010385 Walker A/P-loop; other site 338966010386 ATP binding site [chemical binding]; other site 338966010387 Q-loop/lid; other site 338966010388 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 338966010389 ABC transporter signature motif; other site 338966010390 Walker B; other site 338966010391 D-loop; other site 338966010392 ABC transporter; Region: ABC_tran_2; pfam12848 338966010393 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 338966010394 ABC transporter; Region: ABC_tran_2; pfam12848 338966010395 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 338966010396 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 338966010397 active site 338966010398 HIGH motif; other site 338966010399 dimer interface [polypeptide binding]; other site 338966010400 KMSKS motif; other site 338966010401 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 338966010402 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 338966010403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 338966010404 putative active site [active] 338966010405 metal binding site [ion binding]; metal-binding site 338966010406 homodimer binding site [polypeptide binding]; other site 338966010407 phosphodiesterase; Provisional; Region: PRK12704 338966010408 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966010409 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 338966010410 Cell division protein ZapA; Region: ZapA; cl01146 338966010411 Protein of unknown function (DUF904); Region: DUF904; cl11531 338966010412 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 338966010413 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 338966010414 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 338966010415 P loop; other site 338966010416 GTP binding site [chemical binding]; other site 338966010417 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 338966010418 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 338966010419 Walker A/P-loop; other site 338966010420 ATP binding site [chemical binding]; other site 338966010421 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 338966010422 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 338966010423 Q-loop/lid; other site 338966010424 ABC transporter signature motif; other site 338966010425 Walker B; other site 338966010426 D-loop; other site 338966010427 H-loop/switch region; other site 338966010428 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966010429 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 338966010430 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966010431 ligand binding site [chemical binding]; other site 338966010432 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 338966010433 TolB amino-terminal domain; Region: TolB_N; cl00639 338966010434 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010435 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010436 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010437 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010438 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010439 Gram-negative bacterial tonB protein; Region: TonB; cl10048 338966010440 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 338966010441 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966010442 Predicted amidohydrolase [General function prediction only]; Region: COG0388 338966010443 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 338966010444 putative active site [active] 338966010445 catalytic triad [active] 338966010446 putative dimer interface [polypeptide binding]; other site 338966010447 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 338966010448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966010449 TPR repeat; Region: TPR_11; pfam13414 338966010450 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 338966010451 TPR motif; other site 338966010452 binding surface 338966010453 TPR repeat; Region: TPR_11; pfam13414 338966010454 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 338966010455 binding surface 338966010456 TPR motif; other site 338966010457 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966010458 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 338966010459 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 338966010460 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966010461 binding surface 338966010462 TPR motif; other site 338966010463 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 338966010464 binding surface 338966010465 TPR motif; other site 338966010466 TPR repeat; Region: TPR_11; pfam13414 338966010467 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 338966010468 TPR motif; other site 338966010469 binding surface 338966010470 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966010471 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 338966010472 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966010473 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 338966010474 binding surface 338966010475 TPR motif; other site 338966010476 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 338966010477 TPR motif; other site 338966010478 binding surface 338966010479 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966010480 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 338966010481 TPR motif; other site 338966010482 binding surface 338966010483 TPR repeat; Region: TPR_11; pfam13414 338966010484 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 338966010485 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 338966010486 binding surface 338966010487 TPR motif; other site 338966010488 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 338966010489 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 338966010490 binding surface 338966010491 TPR motif; other site 338966010492 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338966010493 flagellin; Reviewed; Region: PRK12688 338966010494 Flagellar protein FlbT; Region: FlbT; cl11455 338966010495 Flagellar protein FlaF; Region: FlaF; cl11454 338966010496 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966010497 Probable Catalytic site; other site 338966010498 metal-binding site 338966010499 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010500 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966010501 Probable Catalytic site; other site 338966010502 metal-binding site 338966010503 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 338966010504 putative metal binding site; other site 338966010505 TPR repeat; Region: TPR_11; pfam13414 338966010506 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 338966010507 TPR motif; other site 338966010508 binding surface 338966010509 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 338966010510 binding surface 338966010511 TPR motif; other site 338966010512 TPR repeat; Region: TPR_11; pfam13414 338966010513 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 338966010514 binding surface 338966010515 TPR motif; other site 338966010516 TPR repeat; Region: TPR_11; pfam13414 338966010517 TPR repeat; Region: TPR_11; pfam13414 338966010518 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 338966010519 binding surface 338966010520 TPR motif; other site 338966010521 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 338966010522 B12 binding site [chemical binding]; other site 338966010523 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966010524 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 338966010525 FeS/SAM binding site; other site 338966010526 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010527 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 338966010528 active site 338966010529 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338966010530 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 338966010531 active site 338966010532 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 338966010533 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966010534 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 338966010535 FeS/SAM binding site; other site 338966010536 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 338966010537 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 338966010538 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 338966010539 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 338966010540 FeS/SAM binding site; other site 338966010541 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 338966010542 FeS/SAM binding site; other site 338966010543 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966010544 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966010545 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 338966010546 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 338966010547 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966010548 FeS/SAM binding site; other site 338966010549 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 338966010550 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 338966010551 extended (e) SDRs; Region: SDR_e; cd08946 338966010552 NAD(P) binding site [chemical binding]; other site 338966010553 substrate binding site [chemical binding]; other site 338966010554 active site 338966010555 Cupin domain; Region: Cupin_2; cl09118 338966010556 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 338966010557 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 338966010558 inhibitor-cofactor binding pocket; inhibition site 338966010559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966010560 catalytic residue [active] 338966010561 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 338966010562 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 338966010563 NAD binding site [chemical binding]; other site 338966010564 homotetramer interface [polypeptide binding]; other site 338966010565 homodimer interface [polypeptide binding]; other site 338966010566 substrate binding site [chemical binding]; other site 338966010567 active site 338966010568 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 338966010569 substrate binding site; other site 338966010570 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966010571 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 338966010572 active site 338966010573 phosphorylation site [posttranslational modification] 338966010574 intermolecular recognition site; other site 338966010575 dimerization interface [polypeptide binding]; other site 338966010576 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 338966010577 Walker A motif; other site 338966010578 ATP binding site [chemical binding]; other site 338966010579 Walker B motif; other site 338966010580 arginine finger; other site 338966010581 Helix-turn-helix domains; Region: HTH; cl00088 338966010582 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338966010583 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 338966010584 dimerization interface [polypeptide binding]; other site 338966010585 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 338966010586 dimer interface [polypeptide binding]; other site 338966010587 phosphorylation site [posttranslational modification] 338966010588 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 338966010589 ATP binding site [chemical binding]; other site 338966010590 Mg2+ binding site [ion binding]; other site 338966010591 G-X-G motif; other site 338966010592 Surface antigen; Region: Bac_surface_Ag; cl03097 338966010593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 338966010594 Smr domain; Region: Smr; cl02619 338966010595 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 338966010596 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966010597 ligand binding site [chemical binding]; other site 338966010598 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010599 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966010600 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 338966010601 active site 338966010602 phosphorylation site [posttranslational modification] 338966010603 intermolecular recognition site; other site 338966010604 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 338966010605 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 338966010606 dimer interface [polypeptide binding]; other site 338966010607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966010608 catalytic residue [active] 338966010609 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 338966010610 AMP-binding enzyme; Region: AMP-binding; cl15778 338966010611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010612 metal binding site [ion binding]; metal-binding site 338966010613 active site 338966010614 I-site; other site 338966010615 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 338966010616 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 338966010617 Walker B motif; other site 338966010618 arginine finger; other site 338966010619 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 338966010620 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 338966010621 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 338966010622 putative substrate translocation pore; other site 338966010623 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966010624 putative acyl-acceptor binding pocket; other site 338966010625 AMP-binding enzyme; Region: AMP-binding; cl15778 338966010626 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 338966010627 catalytic residues [active] 338966010628 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 338966010629 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 338966010630 CHASE domain; Region: CHASE; cl01369 338966010631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010632 metal binding site [ion binding]; metal-binding site 338966010633 active site 338966010634 I-site; other site 338966010635 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 338966010636 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 338966010637 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966010638 active site 338966010639 HIGH motif; other site 338966010640 nucleotide binding site [chemical binding]; other site 338966010641 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966010642 active site 338966010643 KMSKS motif; other site 338966010644 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 338966010645 HDOD domain; Region: HDOD; pfam08668 338966010646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010647 metal binding site [ion binding]; metal-binding site 338966010648 active site 338966010649 I-site; other site 338966010650 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966010651 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966010652 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 338966010653 active site 338966010654 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 338966010655 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 338966010656 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 338966010657 domain interfaces; other site 338966010658 active site 338966010659 Sugar fermentation stimulation protein; Region: SfsA; cl00647 338966010660 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 338966010661 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 338966010662 tRNA; other site 338966010663 putative tRNA binding site [nucleotide binding]; other site 338966010664 putative NADP binding site [chemical binding]; other site 338966010665 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 338966010666 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 338966010667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010668 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 338966010669 catalytic residues [active] 338966010670 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 338966010671 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 338966010672 catalytic residues [active] 338966010673 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 338966010674 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 338966010675 dimerization interface 3.5A [polypeptide binding]; other site 338966010676 active site 338966010677 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 338966010678 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 338966010679 dimerization interface [polypeptide binding]; other site 338966010680 domain crossover interface; other site 338966010681 redox-dependent activation switch; other site 338966010682 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 338966010683 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 338966010684 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 338966010685 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 338966010686 NAD(P) binding site [chemical binding]; other site 338966010687 homodimer interface [polypeptide binding]; other site 338966010688 substrate binding site [chemical binding]; other site 338966010689 active site 338966010690 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966010691 active site 338966010692 NTP binding site [chemical binding]; other site 338966010693 metal binding triad [ion binding]; metal-binding site 338966010694 antibiotic binding site [chemical binding]; other site 338966010695 Bacterial sugar transferase; Region: Bac_transf; cl00939 338966010696 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 338966010697 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010698 DXD motif; other site 338966010699 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 338966010700 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 338966010701 B12 binding site [chemical binding]; other site 338966010702 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 338966010703 FeS/SAM binding site; other site 338966010704 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966010705 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 338966010706 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 338966010707 putative active site [active] 338966010708 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966010709 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 338966010710 active site 338966010711 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010712 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 338966010713 active site 338966010714 O-Antigen ligase; Region: Wzy_C; cl04850 338966010715 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 338966010716 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 338966010717 S-adenosylmethionine binding site [chemical binding]; other site 338966010718 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966010719 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 338966010720 MatE; Region: MatE; cl10513 338966010721 colanic acid exporter; Provisional; Region: PRK10459 338966010722 Chain length determinant protein; Region: Wzz; cl15801 338966010723 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 338966010724 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966010725 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966010726 SLBB domain; Region: SLBB; pfam10531 338966010727 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 338966010728 SLBB domain; Region: SLBB; pfam10531 338966010729 SLBB domain; Region: SLBB; pfam10531 338966010730 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 338966010731 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966010732 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 338966010733 NAD binding site [chemical binding]; other site 338966010734 putative substrate binding site 2 [chemical binding]; other site 338966010735 putative substrate binding site 1 [chemical binding]; other site 338966010736 active site 338966010737 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 338966010738 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 338966010739 NADP-binding site; other site 338966010740 homotetramer interface [polypeptide binding]; other site 338966010741 substrate binding site [chemical binding]; other site 338966010742 homodimer interface [polypeptide binding]; other site 338966010743 active site 338966010744 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966010745 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 338966010746 putative NAD(P) binding site [chemical binding]; other site 338966010747 active site 338966010748 putative substrate binding site [chemical binding]; other site 338966010749 Transposase domain (DUF772); Region: DUF772; pfam05598 338966010750 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010751 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966010752 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 338966010753 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 338966010754 active site 338966010755 Catalytic domain of Protein Kinases; Region: PKc; cd00180 338966010756 active site 338966010757 ATP binding site [chemical binding]; other site 338966010758 substrate binding site [chemical binding]; other site 338966010759 activation loop (A-loop); other site 338966010760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010761 Predicted ATPase [General function prediction only]; Region: COG3899 338966010762 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966010763 GAF domain; Region: GAF; cl15785 338966010764 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966010765 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 338966010766 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 338966010767 dimer interface [polypeptide binding]; other site 338966010768 phosphorylation site [posttranslational modification] 338966010769 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 338966010770 ATP binding site [chemical binding]; other site 338966010771 Mg2+ binding site [ion binding]; other site 338966010772 G-X-G motif; other site 338966010773 Protein of unknown function (DUF422); Region: DUF422; cl00991 338966010774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 338966010775 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966010776 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 338966010777 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338966010778 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338966010779 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 338966010780 putative homodimer interface [polypeptide binding]; other site 338966010781 putative active site pocket [active] 338966010782 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 338966010783 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 338966010784 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 338966010785 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 338966010786 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 338966010787 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 338966010788 active site 338966010789 substrate binding site [chemical binding]; other site 338966010790 metal binding site [ion binding]; metal-binding site 338966010791 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010792 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 338966010793 active site 338966010794 phosphorylation site [posttranslational modification] 338966010795 intermolecular recognition site; other site 338966010796 dimerization interface [polypeptide binding]; other site 338966010797 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 338966010798 Chemotaxis phosphatase CheX; Region: CheX; cl15816 338966010799 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 338966010800 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966010801 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966010802 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 338966010803 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 338966010804 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 338966010805 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 338966010806 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 338966010807 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 338966010808 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 338966010809 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 338966010810 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 338966010811 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 338966010812 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 338966010813 MgtE intracellular N domain; Region: MgtE_N; cl15244 338966010814 FliG C-terminal domain; Region: FliG_C; pfam01706 338966010815 Flagellar assembly protein FliH; Region: FliH; pfam02108 338966010816 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 338966010817 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 338966010818 Walker A motif/ATP binding site; other site 338966010819 Walker B motif; other site 338966010820 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 338966010821 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 338966010822 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 338966010823 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 338966010824 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 338966010825 FlgD Ig-like domain; Region: FlgD_ig; cl15790 338966010826 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 338966010827 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 338966010828 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 338966010829 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 338966010830 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 338966010831 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 338966010832 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 338966010833 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 338966010834 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 338966010835 FliP family; Region: FliP; cl00593 338966010836 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 338966010837 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 338966010838 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 338966010839 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 338966010840 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 338966010841 FHIPEP family; Region: FHIPEP; pfam00771 338966010842 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 338966010843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010844 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 338966010845 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 338966010846 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 338966010847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966010848 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966010849 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 338966010850 DNA binding residues [nucleotide binding] 338966010851 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 338966010852 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 338966010853 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 338966010854 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 338966010855 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 338966010856 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 338966010857 SAF-like; Region: SAF_2; pfam13144 338966010858 SAF domain; Region: SAF; cl00555 338966010859 Flagellar L-ring protein; Region: FlgH; cl00905 338966010860 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 338966010861 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 338966010862 Rod binding protein; Region: Rod-binding; cl01626 338966010863 FlgN protein; Region: FlgN; cl09176 338966010864 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 338966010865 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 338966010866 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 338966010867 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 338966010868 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338966010869 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 338966010870 Predicted acetyltransferase [General function prediction only]; Region: COG3153 338966010871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966010872 Coenzyme A binding pocket [chemical binding]; other site 338966010873 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 338966010874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010875 Family description; Region: UvrD_C_2; cl15862 338966010876 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 338966010877 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 338966010878 active site 338966010879 phosphorylation site [posttranslational modification] 338966010880 intermolecular recognition site; other site 338966010881 dimerization interface [polypeptide binding]; other site 338966010882 ANTAR domain; Region: ANTAR; cl04297 338966010883 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 338966010884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010885 Bacterial transcriptional activator domain; Region: BTAD; smart01043 338966010886 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 338966010887 binding surface 338966010888 TPR motif; other site 338966010889 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010890 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 338966010891 active site 338966010892 phosphorylation site [posttranslational modification] 338966010893 intermolecular recognition site; other site 338966010894 dimerization interface [polypeptide binding]; other site 338966010895 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 338966010896 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 338966010897 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966010898 FeS/SAM binding site; other site 338966010899 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 338966010900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966010901 Coenzyme A binding pocket [chemical binding]; other site 338966010902 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 338966010903 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966010904 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966010905 dimer interface [polypeptide binding]; other site 338966010906 putative CheW interface [polypeptide binding]; other site 338966010907 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 338966010908 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 338966010909 active site 338966010910 catalytic residues [active] 338966010911 metal binding site [ion binding]; metal-binding site 338966010912 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 338966010913 nitrogenase iron protein; Region: nifH; TIGR01287 338966010914 Nucleotide-binding sites [chemical binding]; other site 338966010915 Walker A motif; other site 338966010916 Switch I region of nucleotide binding site; other site 338966010917 Fe4S4 binding sites [ion binding]; other site 338966010918 Switch II region of nucleotide binding site; other site 338966010919 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 338966010920 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 338966010921 MoFe protein alpha/beta subunit interactions; other site 338966010922 Alpha subunit P cluster binding residues; other site 338966010923 FeMoco binding residues [chemical binding]; other site 338966010924 MoFe protein alpha subunit/Fe protein contacts; other site 338966010925 MoFe protein dimer/ dimer interactions; other site 338966010926 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 338966010927 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 338966010928 MoFe protein beta/alpha subunit interactions; other site 338966010929 Beta subunit P cluster binding residues; other site 338966010930 MoFe protein beta subunit/Fe protein contacts; other site 338966010931 MoFe protein dimer/ dimer interactions; other site 338966010932 flagellar motor protein MotD; Reviewed; Region: PRK09038 338966010933 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 338966010934 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966010935 ligand binding site [chemical binding]; other site 338966010936 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 338966010937 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966010938 Flagellar protein (FlbD); Region: FlbD; cl00683 338966010939 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 338966010940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966010941 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 338966010942 thiS-thiF/thiG interaction site; other site 338966010943 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 338966010944 ThiS interaction site; other site 338966010945 putative active site [active] 338966010946 tetramer interface [polypeptide binding]; other site 338966010947 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 338966010948 thiamine phosphate binding site [chemical binding]; other site 338966010949 active site 338966010950 pyrophosphate binding site [ion binding]; other site 338966010951 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 338966010952 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 338966010953 FeS/SAM binding site; other site 338966010954 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966010955 Zn2+ binding site [ion binding]; other site 338966010956 Mg2+ binding site [ion binding]; other site 338966010957 Transposase domain (DUF772); Region: DUF772; pfam05598 338966010958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010959 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966010960 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010961 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 338966010962 active site 338966010963 phosphorylation site [posttranslational modification] 338966010964 intermolecular recognition site; other site 338966010965 dimerization interface [polypeptide binding]; other site 338966010966 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966010967 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 338966010968 active site 338966010969 phosphorylation site [posttranslational modification] 338966010970 intermolecular recognition site; other site 338966010971 dimerization interface [polypeptide binding]; other site 338966010972 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 338966010973 DNA binding residues [nucleotide binding] 338966010974 dimerization interface [polypeptide binding]; other site 338966010975 PAS fold; Region: PAS_4; pfam08448 338966010976 PAS domain S-box; Region: sensory_box; TIGR00229 338966010977 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 338966010978 Histidine kinase; Region: HisKA_3; pfam07730 338966010979 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 338966010980 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338966010981 AMP-binding enzyme; Region: AMP-binding; cl15778 338966010982 AMP-binding enzyme; Region: AMP-binding; cl15778 338966010983 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 338966010984 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 338966010985 HIGH motif; other site 338966010986 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 338966010987 active site 338966010988 KMSKS motif; other site 338966010989 excinuclease ABC subunit B; Provisional; Region: PRK05298 338966010990 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 338966010991 ATP binding site [chemical binding]; other site 338966010992 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 338966010993 nucleotide binding region [chemical binding]; other site 338966010994 ATP-binding site [chemical binding]; other site 338966010995 Ultra-violet resistance protein B; Region: UvrB; pfam12344 338966010996 UvrB/uvrC motif; Region: UVR; pfam02151 338966010997 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338966010998 endonuclease III; Region: ENDO3c; smart00478 338966010999 minor groove reading motif; other site 338966011000 helix-hairpin-helix signature motif; other site 338966011001 substrate binding pocket [chemical binding]; other site 338966011002 active site 338966011003 Helix-turn-helix domains; Region: HTH; cl00088 338966011004 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 338966011005 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 338966011006 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 338966011007 4Fe-4S binding domain; Region: Fer4; cl02805 338966011008 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 338966011009 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 338966011010 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 338966011011 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 338966011012 PAS domain S-box; Region: sensory_box; TIGR00229 338966011013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011014 metal binding site [ion binding]; metal-binding site 338966011015 active site 338966011016 I-site; other site 338966011017 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 338966011018 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 338966011019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011020 metal binding site [ion binding]; metal-binding site 338966011021 active site 338966011022 I-site; other site 338966011023 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 338966011024 Rhomboid family; Region: Rhomboid; cl11446 338966011025 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 338966011026 iron binding site [ion binding]; other site 338966011027 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 338966011028 iron binding site [ion binding]; other site 338966011029 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 338966011030 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966011031 glutamate dehydrogenase; Provisional; Region: PRK09414 338966011032 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 338966011033 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 338966011034 NAD(P) binding site [chemical binding]; other site 338966011035 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338966011036 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 338966011037 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 338966011038 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 338966011039 Ligand Binding Site [chemical binding]; other site 338966011040 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 338966011041 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 338966011042 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966011043 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966011044 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 338966011045 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 338966011046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 338966011047 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 338966011048 Transposase domain (DUF772); Region: DUF772; pfam05598 338966011049 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011050 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966011051 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 338966011052 Rubredoxin; Region: Rubredoxin; pfam00301 338966011053 iron binding site [ion binding]; other site 338966011054 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 338966011055 diiron binding motif [ion binding]; other site 338966011056 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 338966011057 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 338966011058 G1 box; other site 338966011059 putative GEF interaction site [polypeptide binding]; other site 338966011060 GTP/Mg2+ binding site [chemical binding]; other site 338966011061 Switch I region; other site 338966011062 G2 box; other site 338966011063 G3 box; other site 338966011064 Switch II region; other site 338966011065 G4 box; other site 338966011066 G5 box; other site 338966011067 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 338966011068 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 338966011069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966011070 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 338966011071 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 338966011072 putative catalytic cysteine [active] 338966011073 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 338966011074 heme-binding residues [chemical binding]; other site 338966011075 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338966011076 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966011077 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 338966011078 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 338966011079 AMMECR1; Region: AMMECR1; cl00911 338966011080 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 338966011081 active site 338966011082 catalytic residues [active] 338966011083 metal binding site [ion binding]; metal-binding site 338966011084 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 338966011085 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 338966011086 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 338966011087 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 338966011088 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 338966011089 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 338966011090 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966011091 SLBB domain; Region: SLBB; pfam10531 338966011092 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 338966011093 4Fe-4S binding domain; Region: Fer4; cl02805 338966011094 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966011095 4Fe-4S binding domain; Region: Fer4; cl02805 338966011096 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 338966011097 dimer interface [polypeptide binding]; other site 338966011098 [2Fe-2S] cluster binding site [ion binding]; other site 338966011099 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 338966011100 putative dimer interface [polypeptide binding]; other site 338966011101 [2Fe-2S] cluster binding site [ion binding]; other site 338966011102 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 338966011103 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 338966011104 GTP binding site; other site 338966011105 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 338966011106 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 338966011107 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 338966011108 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 338966011109 [4Fe-4S] binding site [ion binding]; other site 338966011110 molybdopterin cofactor binding site; other site 338966011111 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 338966011112 molybdopterin cofactor binding site; other site 338966011113 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 338966011114 nickel binding site [ion binding]; other site 338966011115 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 338966011116 4Fe-4S binding domain; Region: Fer4; cl02805 338966011117 NADH dehydrogenase; Region: NADHdh; cl00469 338966011118 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 338966011119 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 338966011120 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 338966011121 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 338966011122 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966011123 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 338966011124 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966011125 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 338966011126 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966011127 hydrogenase 4 subunit D; Validated; Region: PRK06525 338966011128 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 338966011129 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 338966011130 tetramerization interface [polypeptide binding]; other site 338966011131 active site 338966011132 Transposase domain (DUF772); Region: DUF772; pfam05598 338966011133 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011134 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966011135 pantoate--beta-alanine ligase; Region: panC; TIGR00018 338966011136 Pantoate-beta-alanine ligase; Region: PanC; cd00560 338966011137 active site 338966011138 ATP-binding site [chemical binding]; other site 338966011139 pantoate-binding site; other site 338966011140 HXXH motif; other site 338966011141 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 338966011142 oligomerization interface [polypeptide binding]; other site 338966011143 active site 338966011144 metal binding site [ion binding]; metal-binding site 338966011145 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966011146 GAF domain; Region: GAF; cl15785 338966011147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966011148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966011149 dimer interface [polypeptide binding]; other site 338966011150 putative CheW interface [polypeptide binding]; other site 338966011151 PilZ domain; Region: PilZ; cl01260 338966011152 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 338966011153 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 338966011154 active site residue [active] 338966011155 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 338966011156 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 338966011157 putative RNA binding site [nucleotide binding]; other site 338966011158 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 338966011159 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 338966011160 Protein of unknown function (DUF445); Region: DUF445; pfam04286 338966011161 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 338966011162 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 338966011163 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 338966011164 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 338966011165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966011166 Walker A/P-loop; other site 338966011167 ATP binding site [chemical binding]; other site 338966011168 Q-loop/lid; other site 338966011169 ABC transporter signature motif; other site 338966011170 Walker B; other site 338966011171 D-loop; other site 338966011172 H-loop/switch region; other site 338966011173 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 338966011174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966011175 Walker A/P-loop; other site 338966011176 ATP binding site [chemical binding]; other site 338966011177 Q-loop/lid; other site 338966011178 ABC transporter signature motif; other site 338966011179 Walker B; other site 338966011180 D-loop; other site 338966011181 H-loop/switch region; other site 338966011182 RF-1 domain; Region: RF-1; cl02875 338966011183 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 338966011184 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 338966011185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966011186 Walker A/P-loop; other site 338966011187 ATP binding site [chemical binding]; other site 338966011188 Q-loop/lid; other site 338966011189 ABC transporter signature motif; other site 338966011190 Walker B; other site 338966011191 D-loop; other site 338966011192 H-loop/switch region; other site 338966011193 ABC transporter; Region: ABC_tran_2; pfam12848 338966011194 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 338966011195 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 338966011196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966011197 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 338966011198 PEP-CTERM motif; Region: VPEP; cl15443 338966011199 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 338966011200 Helix-turn-helix domains; Region: HTH; cl00088 338966011201 Winged helix-turn helix; Region: HTH_29; pfam13551 338966011202 Winged helix-turn helix; Region: HTH_33; pfam13592 338966011203 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 338966011204 AAA domain; Region: AAA_25; pfam13481 338966011205 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 338966011206 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966011207 active site 338966011208 Int/Topo IB signature motif; other site 338966011209 DNA binding site [nucleotide binding] 338966011210 Tim44-like domain; Region: Tim44; cl09208 338966011211 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 338966011212 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 338966011213 Integral membrane protein TerC family; Region: TerC; cl10468 338966011214 Peptidase family M48; Region: Peptidase_M48; cl12018 338966011215 yybP-ykoY element as predicted by Rfam (RF00080), score 66.34 338966011216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966011217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966011218 NAD(P) binding site [chemical binding]; other site 338966011219 active site 338966011220 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 338966011221 PAS domain; Region: PAS_9; pfam13426 338966011222 putative active site [active] 338966011223 heme pocket [chemical binding]; other site 338966011224 PAS fold; Region: PAS; pfam00989 338966011225 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966011226 PAS fold; Region: PAS_4; pfam08448 338966011227 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 338966011228 putative active site [active] 338966011229 heme pocket [chemical binding]; other site 338966011230 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966011231 Sensory domain found in PocR; Region: PocR; pfam10114 338966011232 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 338966011233 PAS domain; Region: PAS_9; pfam13426 338966011234 putative active site [active] 338966011235 heme pocket [chemical binding]; other site 338966011236 GAF domain; Region: GAF_2; pfam13185 338966011237 GAF domain; Region: GAF; cl15785 338966011238 sensory histidine kinase AtoS; Provisional; Region: PRK11360 338966011239 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 338966011240 dimer interface [polypeptide binding]; other site 338966011241 phosphorylation site [posttranslational modification] 338966011242 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 338966011243 ATP binding site [chemical binding]; other site 338966011244 Mg2+ binding site [ion binding]; other site 338966011245 G-X-G motif; other site 338966011246 Quinolinate synthetase A protein; Region: NadA; cl00420 338966011247 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 338966011248 Uncharacterized conserved protein [Function unknown]; Region: COG2006 338966011249 4Fe-4S binding domain; Region: Fer4; cl02805 338966011250 hybrid cluster protein; Provisional; Region: PRK05290 338966011251 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 338966011252 ACS interaction site; other site 338966011253 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 338966011254 hybrid metal cluster; other site 338966011255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 338966011256 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 338966011257 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 338966011258 FeS/SAM binding site; other site 338966011259 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 338966011260 S-adenosylmethionine binding site [chemical binding]; other site 338966011261 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 338966011262 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 338966011263 NADP binding site [chemical binding]; other site 338966011264 homopentamer interface [polypeptide binding]; other site 338966011265 substrate binding site [chemical binding]; other site 338966011266 active site 338966011267 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 338966011268 hypothetical protein; Reviewed; Region: PRK00024 338966011269 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966011270 MPN+ (JAMM) motif; other site 338966011271 Zinc-binding site [ion binding]; other site 338966011272 Bacitracin resistance protein BacA; Region: BacA; cl00858 338966011273 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 338966011274 Phosphate transporter family; Region: PHO4; cl00396 338966011275 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 338966011276 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 338966011277 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 338966011278 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966011279 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966011280 putative peptidyl-prolyl cis-trans isomerase, LIC12922 family; Region: PCisTranLspir; TIGR04142 338966011281 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966011282 PPIC-type PPIASE domain; Region: Rotamase; cl08278 338966011283 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966011284 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 338966011285 active site 338966011286 phosphorylation site [posttranslational modification] 338966011287 intermolecular recognition site; other site 338966011288 dimerization interface [polypeptide binding]; other site 338966011289 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 338966011290 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 338966011291 putative ribose interaction site [chemical binding]; other site 338966011292 putative ADP binding site [chemical binding]; other site 338966011293 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966011294 active site 338966011295 nucleotide binding site [chemical binding]; other site 338966011296 HIGH motif; other site 338966011297 KMSKS motif; other site 338966011298 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 338966011299 dimer interface [polypeptide binding]; other site 338966011300 active site 338966011301 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 338966011302 active site 338966011303 rod shape-determining protein MreB; Provisional; Region: PRK13927 338966011304 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 338966011305 ATP binding site [chemical binding]; other site 338966011306 gelsolin binding site; other site 338966011307 profilin binding site; other site 338966011308 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 338966011309 PAS fold; Region: PAS_4; pfam08448 338966011310 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 338966011311 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 338966011312 ATP binding site [chemical binding]; other site 338966011313 Mg2+ binding site [ion binding]; other site 338966011314 G-X-G motif; other site 338966011315 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 338966011316 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966011317 active site 338966011318 HIGH motif; other site 338966011319 nucleotide binding site [chemical binding]; other site 338966011320 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 338966011321 active site 338966011322 KMSKS motif; other site 338966011323 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 338966011324 tRNA binding surface [nucleotide binding]; other site 338966011325 anticodon binding site; other site 338966011326 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338966011327 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 338966011328 lipoprotein signal peptidase; Provisional; Region: PRK14787 338966011329 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 338966011330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 338966011331 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 338966011332 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 338966011333 Transposase domain (DUF772); Region: DUF772; pfam05598 338966011334 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011335 DDE superfamily endonuclease; Region: DDE_4; cl15789 338966011336 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 338966011337 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 338966011338 active site 338966011339 substrate-binding site [chemical binding]; other site 338966011340 metal-binding site [ion binding] 338966011341 ATP binding site [chemical binding]; other site 338966011342 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338966011343 active site 338966011344 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 338966011345 putative active site [active] 338966011346 catalytic site [active] 338966011347 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966011348 putative active site [active] 338966011349 catalytic site [active] 338966011350 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 338966011351 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 338966011352 DNA binding site [nucleotide binding] 338966011353 catalytic residue [active] 338966011354 H2TH interface [polypeptide binding]; other site 338966011355 putative catalytic residues [active] 338966011356 turnover-facilitating residue; other site 338966011357 intercalation triad [nucleotide binding]; other site 338966011358 8OG recognition residue [nucleotide binding]; other site 338966011359 putative reading head residues; other site 338966011360 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 338966011361 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338966011362 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 338966011363 putative active site [active] 338966011364 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 338966011365 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 338966011366 Sulfatase; Region: Sulfatase; cl10460 338966011367 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 338966011368 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 338966011369 Oligomerisation domain; Region: Oligomerisation; cl00519 338966011370 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 338966011371 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 338966011372 active site 338966011373 (T/H)XGH motif; other site 338966011374 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966011375 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 338966011376 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 338966011377 Ligand binding site; other site 338966011378 Putative Catalytic site; other site 338966011379 DXD motif; other site 338966011380 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 338966011381 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 338966011382 catalytic site [active] 338966011383 putative active site [active] 338966011384 putative substrate binding site [chemical binding]; other site 338966011385 HRDC domain; Region: HRDC; cl02578 338966011386 HRDC domain; Region: HRDC; cl02578 338966011387 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 338966011388 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 338966011389 S-adenosylmethionine binding site [chemical binding]; other site 338966011390 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 338966011391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966011392 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 338966011393 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 338966011394 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 338966011395 trmE is a tRNA modification GTPase; Region: trmE; cd04164 338966011396 G1 box; other site 338966011397 GTP/Mg2+ binding site [chemical binding]; other site 338966011398 Switch I region; other site 338966011399 G2 box; other site 338966011400 Switch II region; other site 338966011401 G3 box; other site 338966011402 G4 box; other site 338966011403 G5 box; other site 338966011404 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 338966011405 membrane protein insertase; Provisional; Region: PRK01318 338966011406 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 338966011407 Haemolytic domain; Region: Haemolytic; cl00506 338966011408 Ribonuclease P; Region: Ribonuclease_P; cl00457 338966011409 Ribosomal protein L34; Region: Ribosomal_L34; cl00370