-- dump date 20140619_233016 -- class Genbank::misc_feature -- table misc_feature_note -- id note 338966000001 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 338966000002 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 338966000003 PRTRC system protein A; Region: PRTRC_A; TIGR03735 338966000004 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 338966000005 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 338966000006 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 338966000007 active site 338966000008 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 338966000009 protein binding site [polypeptide binding]; other site 338966000010 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 338966000011 putative substrate binding region [chemical binding]; other site 338966000012 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000014 active site 338966000015 phosphorylation site [posttranslational modification] 338966000016 intermolecular recognition site; other site 338966000017 dimerization interface [polypeptide binding]; other site 338966000018 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 338966000019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966000020 putative active site [active] 338966000021 heme pocket [chemical binding]; other site 338966000022 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 338966000023 ATP binding site [chemical binding]; other site 338966000024 Mg2+ binding site [ion binding]; other site 338966000025 G-X-G motif; other site 338966000026 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 338966000027 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 338966000028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000029 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 338966000030 dimerization interface [polypeptide binding]; other site 338966000031 K-box region; Region: K-box; pfam01486 338966000032 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 338966000033 ATP binding site [chemical binding]; other site 338966000034 Mg2+ binding site [ion binding]; other site 338966000035 G-X-G motif; other site 338966000036 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 338966000037 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; cl17244 338966000038 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 338966000039 putative homodimer interface [polypeptide binding]; other site 338966000040 putative homotetramer interface [polypeptide binding]; other site 338966000041 putative allosteric switch controlling residues; other site 338966000042 putative metal binding site [ion binding]; other site 338966000043 putative homodimer-homodimer interface [polypeptide binding]; other site 338966000044 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966000045 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 338966000046 metal-binding site [ion binding] 338966000047 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966000048 Soluble P-type ATPase [General function prediction only]; Region: COG4087 338966000049 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338966000050 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966000051 Zn2+ binding site [ion binding]; other site 338966000052 Mg2+ binding site [ion binding]; other site 338966000053 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 338966000054 metal-binding site [ion binding] 338966000055 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 338966000056 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000057 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966000058 FtsX-like permease family; Region: FtsX; pfam02687 338966000059 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000060 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966000061 Walker A/P-loop; other site 338966000062 ATP binding site [chemical binding]; other site 338966000063 Q-loop/lid; other site 338966000064 ABC transporter signature motif; other site 338966000065 Walker B; other site 338966000066 D-loop; other site 338966000067 H-loop/switch region; other site 338966000068 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338966000069 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966000070 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 338966000071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000072 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 338966000073 dimer interface [polypeptide binding]; other site 338966000074 phosphorylation site [posttranslational modification] 338966000075 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 338966000076 ATP binding site [chemical binding]; other site 338966000077 Mg2+ binding site [ion binding]; other site 338966000078 G-X-G motif; other site 338966000079 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966000080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000081 active site 338966000082 phosphorylation site [posttranslational modification] 338966000083 intermolecular recognition site; other site 338966000084 dimerization interface [polypeptide binding]; other site 338966000085 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 338966000086 Walker A motif; other site 338966000087 ATP binding site [chemical binding]; other site 338966000088 Walker B motif; other site 338966000089 arginine finger; other site 338966000090 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966000091 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966000092 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 338966000093 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966000094 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 338966000095 Protein export membrane protein; Region: SecD_SecF; cl14618 338966000096 Sporulation and spore germination; Region: Germane; pfam10646 338966000097 Cytochrome C' Region: Cytochrom_C_2; cl01610 338966000098 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 338966000099 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966000100 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 338966000101 catalytic residues [active] 338966000102 catalytic nucleophile [active] 338966000103 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000104 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000105 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000106 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000107 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966000108 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966000109 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 338966000110 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966000111 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 338966000112 S-adenosylmethionine binding site [chemical binding]; other site 338966000113 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000114 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000115 Catalytic site; other site 338966000116 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 338966000117 non-specific DNA binding site [nucleotide binding]; other site 338966000118 salt bridge; other site 338966000119 sequence-specific DNA binding site [nucleotide binding]; other site 338966000120 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 338966000121 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338966000122 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 338966000123 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 338966000124 PLD-like domain; Region: PLDc_2; pfam13091 338966000125 putative homodimer interface [polypeptide binding]; other site 338966000126 putative active site [active] 338966000127 catalytic site [active] 338966000128 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966000129 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 338966000130 putative Mg++ binding site [ion binding]; other site 338966000131 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 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 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966000136 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 338966000137 catalytic residues [active] 338966000138 catalytic nucleophile [active] 338966000139 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000140 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000141 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000142 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000143 DNA binding site [nucleotide binding] 338966000144 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 338966000145 High-affinity nickel-transport protein; Region: NicO; cl00964 338966000146 Homeodomain-like domain; Region: HTH_23; pfam13384 338966000147 Winged helix-turn helix; Region: HTH_29; pfam13551 338966000148 Winged helix-turn helix; Region: HTH_33; pfam13592 338966000149 DDE superfamily endonuclease; Region: DDE_3; pfam13358 338966000150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 338966000151 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 338966000152 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 338966000153 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 338966000154 FeoA domain; Region: FeoA; pfam04023 338966000155 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966000156 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966000157 G1 box; other site 338966000158 GTP/Mg2+ binding site [chemical binding]; other site 338966000159 Switch I region; other site 338966000160 G2 box; other site 338966000161 G3 box; other site 338966000162 Switch II region; other site 338966000163 G4 box; other site 338966000164 G5 box; other site 338966000165 Nucleoside recognition; Region: Gate; pfam07670 338966000166 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966000167 Nucleoside recognition; Region: Gate; pfam07670 338966000168 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 338966000169 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 338966000170 metal-binding site [ion binding] 338966000171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966000172 Heavy-metal-associated domain; Region: HMA; pfam00403 338966000173 metal-binding site [ion binding] 338966000174 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966000175 Soluble P-type ATPase [General function prediction only]; Region: COG4087 338966000176 Domain of unknown function DUF302; Region: DUF302; cl01364 338966000177 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 338966000178 lipoprotein signal peptidase; Provisional; Region: PRK14787 338966000179 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 338966000180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000181 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 338966000182 dimerization interface [polypeptide binding]; other site 338966000183 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 338966000184 dimer interface [polypeptide binding]; other site 338966000185 phosphorylation site [posttranslational modification] 338966000186 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 338966000187 ATP binding site [chemical binding]; other site 338966000188 Mg2+ binding site [ion binding]; other site 338966000189 G-X-G motif; other site 338966000190 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966000191 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000192 active site 338966000193 phosphorylation site [posttranslational modification] 338966000194 intermolecular recognition site; other site 338966000195 dimerization interface [polypeptide binding]; other site 338966000196 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 338966000197 DNA binding site [nucleotide binding] 338966000198 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 338966000199 dimerization interface [polypeptide binding]; other site 338966000200 putative DNA binding site [nucleotide binding]; other site 338966000201 putative Zn2+ binding site [ion binding]; other site 338966000202 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000203 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 338966000204 catalytic residues [active] 338966000205 catalytic nucleophile [active] 338966000206 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000207 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000208 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000209 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000210 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 338966000211 DNA-binding interface [nucleotide binding]; DNA binding site 338966000212 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966000213 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966000214 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 338966000215 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966000216 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 338966000217 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966000218 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966000219 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 338966000220 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 338966000221 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 338966000222 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 338966000223 PAS domain; Region: PAS_9; pfam13426 338966000224 putative active site [active] 338966000225 heme pocket [chemical binding]; other site 338966000226 hybrid cluster protein; Provisional; Region: PRK05290 338966000227 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 338966000228 ACS interaction site; other site 338966000229 CODH interaction site; other site 338966000230 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 338966000231 hybrid metal cluster; other site 338966000232 HPP family; Region: HPP; pfam04982 338966000233 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966000234 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 338966000235 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338966000236 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966000237 Transposase domain (DUF772); Region: DUF772; pfam05598 338966000238 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000239 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 338966000240 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966000241 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 338966000242 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338966000243 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 338966000244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 338966000245 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 338966000246 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966000247 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966000248 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 338966000249 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 338966000250 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000251 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966000252 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966000253 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000254 FtsX-like permease family; Region: FtsX; pfam02687 338966000255 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000256 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966000257 Walker A/P-loop; other site 338966000258 ATP binding site [chemical binding]; other site 338966000259 Q-loop/lid; other site 338966000260 ABC transporter signature motif; other site 338966000261 Walker B; other site 338966000262 D-loop; other site 338966000263 H-loop/switch region; other site 338966000264 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966000265 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 338966000266 catalytic residues [active] 338966000267 catalytic nucleophile [active] 338966000268 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000269 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000270 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000271 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000272 DNA binding site [nucleotide binding] 338966000273 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 338966000274 DNA-binding interface [nucleotide binding]; DNA binding site 338966000275 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966000276 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 338966000277 transposase/IS protein; Provisional; Region: PRK09183 338966000278 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 338966000279 Walker A motif; other site 338966000280 ATP binding site [chemical binding]; other site 338966000281 Walker B motif; other site 338966000282 arginine finger; other site 338966000283 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 338966000284 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966000285 Integrase core domain; Region: rve; pfam00665 338966000286 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966000287 Protein of unknown function (DUF3232); Region: DUF3232; pfam11554 338966000288 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338966000289 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 338966000290 dimer interface [polypeptide binding]; other site 338966000291 ssDNA binding site [nucleotide binding]; other site 338966000292 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966000293 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 338966000294 S-adenosylmethionine binding site [chemical binding]; other site 338966000295 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; cl17251 338966000296 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338966000297 DNA primase, catalytic core; Region: dnaG; TIGR01391 338966000298 CHC2 zinc finger; Region: zf-CHC2; cl17510 338966000299 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 338966000300 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 338966000301 active site 338966000302 metal binding site [ion binding]; metal-binding site 338966000303 interdomain interaction site; other site 338966000304 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966000305 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 338966000306 Walker A motif; other site 338966000307 ATP binding site [chemical binding]; other site 338966000308 Walker B motif; other site 338966000309 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 338966000310 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966000311 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 338966000312 metal ion-dependent adhesion site (MIDAS); other site 338966000313 hypothetical protein; Reviewed; Region: PRK00024 338966000314 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966000315 MPN+ (JAMM) motif; other site 338966000316 Zinc-binding site [ion binding]; other site 338966000317 HD domain; Region: HD_3; cl17350 338966000318 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 338966000319 non-specific DNA binding site [nucleotide binding]; other site 338966000320 salt bridge; other site 338966000321 sequence-specific DNA binding site [nucleotide binding]; other site 338966000322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966000323 AAA domain; Region: AAA_21; pfam13304 338966000324 Walker A/P-loop; other site 338966000325 ATP binding site [chemical binding]; other site 338966000326 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000327 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000328 Catalytic site; other site 338966000329 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 338966000330 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 338966000331 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; cd00397 338966000332 active site 338966000333 DNA binding site [nucleotide binding] 338966000334 Int/Topo IB signature motif; other site 338966000335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966000336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000337 active site 338966000338 phosphorylation site [posttranslational modification] 338966000339 intermolecular recognition site; other site 338966000340 dimerization interface [polypeptide binding]; other site 338966000341 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 338966000342 DNA binding site [nucleotide binding] 338966000343 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 338966000344 IHF dimer interface [polypeptide binding]; other site 338966000345 IHF - DNA interface [nucleotide binding]; other site 338966000346 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 338966000347 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 338966000348 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 338966000349 Src Homology 3 domain superfamily; Region: SH3; cl17036 338966000350 peptide ligand binding site [polypeptide binding]; other site 338966000351 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 338966000352 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338966000353 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966000354 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 338966000355 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 338966000356 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 338966000357 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 338966000358 TraU protein; Region: TraU; pfam06834 338966000359 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 338966000360 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 338966000361 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 338966000362 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 338966000363 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 338966000364 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 338966000365 TraK protein; Region: TraK; pfam06586 338966000366 TraE protein; Region: TraE; cl05060 338966000367 TraL protein; Region: TraL; cl06278 338966000368 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 338966000369 dimerization domain [polypeptide binding]; other site 338966000370 dimer interface [polypeptide binding]; other site 338966000371 catalytic residues [active] 338966000372 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966000373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966000374 ligand binding site [chemical binding]; other site 338966000375 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966000376 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 338966000377 P-loop; other site 338966000378 Magnesium ion binding site [ion binding]; other site 338966000379 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 338966000380 Magnesium ion binding site [ion binding]; other site 338966000381 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966000382 Initiator Replication protein; Region: Rep_3; pfam01051 338966000383 Initiator Replication protein; Region: Rep_3; pfam01051 338966000384 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 338966000385 Mg binding site [ion binding]; other site 338966000386 nucleotide binding site [chemical binding]; other site 338966000387 putative protofilament interface [polypeptide binding]; other site 338966000388 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966000389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000390 active site 338966000391 phosphorylation site [posttranslational modification] 338966000392 intermolecular recognition site; other site 338966000393 dimerization interface [polypeptide binding]; other site 338966000394 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; cl17189 338966000395 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966000396 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 338966000397 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966000398 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...; Region: LT_GEWL; cd00254 338966000399 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966000400 catalytic residue [active] 338966000401 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 338966000402 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 338966000403 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 338966000404 F plasmid transfer operon protein; Region: TraF; pfam13728 338966000405 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 338966000406 catalytic residues [active] 338966000407 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 338966000408 AAA domain; Region: AAA_30; pfam13604 338966000409 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966000410 Family description; Region: UvrD_C_2; pfam13538 338966000411 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 338966000412 dimerization interface [polypeptide binding]; other site 338966000413 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000415 dimer interface [polypeptide binding]; other site 338966000416 putative CheW interface [polypeptide binding]; other site 338966000417 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 338966000418 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 338966000419 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338966000420 active site 338966000421 catalytic site [active] 338966000422 substrate binding site [chemical binding]; other site 338966000423 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966000424 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 338966000425 non-specific DNA binding site [nucleotide binding]; other site 338966000426 salt bridge; other site 338966000427 sequence-specific DNA binding site [nucleotide binding]; other site 338966000428 HipA N-terminal domain; Region: Couple_hipA; pfam13657 338966000429 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 338966000430 HipA-like N-terminal domain; Region: HipA_N; pfam07805 338966000431 HipA-like C-terminal domain; Region: HipA_C; pfam07804 338966000432 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 338966000433 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 338966000434 ParB-like nuclease domain; Region: ParBc; pfam02195 338966000435 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 338966000436 PRTRC system protein E; Region: PRTRC_E; TIGR03741 338966000437 Prokaryotic Ubiquitin; Region: Prok_Ub; pfam14454 338966000438 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 338966000439 Prokaryotic E2 family D; Region: Prok-E2_D; pfam14460 338966000440 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 338966000441 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 338966000442 ATP binding site [chemical binding]; other site 338966000443 substrate interface [chemical binding]; other site 338966000444 Conjugal transfer protein TraD; Region: TraD; pfam06412 338966000445 MobA/MobL family; Region: MobA_MobL; pfam03389 338966000446 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966000447 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966000448 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 338966000449 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000450 catalytic residues [active] 338966000451 catalytic nucleophile [active] 338966000452 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000453 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000454 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000455 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000456 DNA binding site [nucleotide binding] 338966000457 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 338966000458 DNA-binding interface [nucleotide binding]; DNA binding site 338966000459 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966000460 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000461 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966000462 Walker A/P-loop; other site 338966000463 ATP binding site [chemical binding]; other site 338966000464 Q-loop/lid; other site 338966000465 ABC transporter signature motif; other site 338966000466 Walker B; other site 338966000467 D-loop; other site 338966000468 H-loop/switch region; other site 338966000469 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000470 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966000471 FtsX-like permease family; Region: FtsX; pfam02687 338966000472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966000474 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966000475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966000476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966000477 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 338966000478 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 338966000479 non-specific DNA binding site [nucleotide binding]; other site 338966000480 salt bridge; other site 338966000481 sequence-specific DNA binding site [nucleotide binding]; other site 338966000482 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 338966000483 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 338966000484 MerR family regulatory protein; Region: MerR; pfam00376 338966000485 DNA binding residues [nucleotide binding] 338966000486 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 338966000487 Predicted transcriptional regulator [Transcription]; Region: COG3905 338966000488 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 338966000489 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966000490 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966000491 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 338966000492 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966000493 catalytic residues [active] 338966000494 catalytic nucleophile [active] 338966000495 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966000496 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966000497 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966000498 Synaptic Site I dimer interface [polypeptide binding]; other site 338966000499 DNA binding site [nucleotide binding] 338966000500 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 338966000501 DNA-binding interface [nucleotide binding]; DNA binding site 338966000502 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966000503 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966000504 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966000505 Walker A/P-loop; other site 338966000506 ATP binding site [chemical binding]; other site 338966000507 Q-loop/lid; other site 338966000508 ABC transporter signature motif; other site 338966000509 Walker B; other site 338966000510 D-loop; other site 338966000511 H-loop/switch region; other site 338966000512 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966000513 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966000514 FtsX-like permease family; Region: FtsX; pfam02687 338966000515 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966000516 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966000517 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966000518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966000519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966000520 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 338966000521 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 338966000522 cofactor binding site; other site 338966000523 DNA binding site [nucleotide binding] 338966000524 substrate interaction site [chemical binding]; other site 338966000525 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966000526 DNA binding residues [nucleotide binding] 338966000527 Initiator Replication protein; Region: Rep_3; pfam01051 338966000528 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 338966000529 DnaA N-terminal domain; Region: DnaA_N; pfam11638 338966000530 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 338966000531 Walker A motif; other site 338966000532 ATP binding site [chemical binding]; other site 338966000533 Walker B motif; other site 338966000534 arginine finger; other site 338966000535 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 338966000536 DnaA box-binding interface [nucleotide binding]; other site 338966000537 DNA polymerase III subunit beta; Validated; Region: PRK05643 338966000538 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 338966000539 putative DNA binding surface [nucleotide binding]; other site 338966000540 dimer interface [polypeptide binding]; other site 338966000541 beta-clamp/clamp loader binding surface; other site 338966000542 beta-clamp/translesion DNA polymerase binding surface; other site 338966000543 recombination protein F; Reviewed; Region: recF; PRK00064 338966000544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966000545 Walker A/P-loop; other site 338966000546 ATP binding site [chemical binding]; other site 338966000547 Q-loop/lid; other site 338966000548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966000549 ABC transporter signature motif; other site 338966000550 Walker B; other site 338966000551 D-loop; other site 338966000552 H-loop/switch region; other site 338966000553 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 338966000554 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 338966000555 Mg2+ binding site [ion binding]; other site 338966000556 G-X-G motif; other site 338966000557 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 338966000558 anchoring element; other site 338966000559 dimer interface [polypeptide binding]; other site 338966000560 ATP binding site [chemical binding]; other site 338966000561 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 338966000562 active site 338966000563 putative metal-binding site [ion binding]; other site 338966000564 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 338966000565 DNA gyrase subunit A; Validated; Region: PRK05560 338966000566 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...; Region: TOP4c; cd00187 338966000567 CAP-like domain; other site 338966000568 active site 338966000569 primary dimer interface [polypeptide binding]; other site 338966000570 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000571 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000572 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000573 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000574 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 338966000575 HEAT repeats; Region: HEAT_2; pfam13646 338966000576 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 338966000577 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 338966000578 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 338966000579 Fic/DOC family; Region: Fic; cl00960 338966000580 RmuC family; Region: RmuC; pfam02646 338966000581 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 338966000582 homotrimer interaction site [polypeptide binding]; other site 338966000583 zinc binding site [ion binding]; other site 338966000584 CDP-binding sites; other site 338966000585 chaperone protein DnaJ; Provisional; Region: PRK14299 338966000586 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 338966000587 HSP70 interaction site [polypeptide binding]; other site 338966000588 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338966000589 substrate binding site [polypeptide binding]; other site 338966000590 dimer interface [polypeptide binding]; other site 338966000591 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 338966000592 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966000593 Protein of unknown function DUF45; Region: DUF45; pfam01863 338966000594 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 338966000595 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 338966000596 dimer interface [polypeptide binding]; other site 338966000597 active site 338966000598 CoA binding pocket [chemical binding]; other site 338966000599 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 338966000600 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 338966000601 active site 338966000602 dimerization interface [polypeptide binding]; other site 338966000603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966000604 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000605 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966000606 YGGT family; Region: YGGT; pfam02325 338966000607 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 338966000608 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 338966000609 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 338966000610 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 338966000611 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 338966000612 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 338966000613 ADP-glucose phosphorylase; Region: PLN02643 338966000614 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 338966000615 dimer interface [polypeptide binding]; other site 338966000616 active site 338966000617 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 338966000618 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 338966000619 putative active site [active] 338966000620 catalytic site [active] 338966000621 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 338966000622 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 338966000623 active site 338966000624 Substrate binding site; other site 338966000625 Mg++ binding site; other site 338966000626 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 338966000627 putative trimer interface [polypeptide binding]; other site 338966000628 putative CoA binding site [chemical binding]; other site 338966000629 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 338966000630 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 338966000631 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 338966000632 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000634 active site 338966000635 phosphorylation site [posttranslational modification] 338966000636 intermolecular recognition site; other site 338966000637 dimerization interface [polypeptide binding]; other site 338966000638 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966000639 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966000640 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 338966000641 dimer interface [polypeptide binding]; other site 338966000642 phosphorylation site [posttranslational modification] 338966000643 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 338966000644 ATP binding site [chemical binding]; other site 338966000645 G-X-G motif; other site 338966000646 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 338966000647 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 338966000648 active site 338966000649 HIGH motif; other site 338966000650 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 338966000651 KMSKS motif; other site 338966000652 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 338966000653 tRNA binding surface [nucleotide binding]; other site 338966000654 anticodon binding site; other site 338966000655 oxaloacetate decarboxylase; Provisional; Region: PRK12330 338966000656 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966000657 active site 338966000658 catalytic residues [active] 338966000659 metal binding site [ion binding]; metal-binding site 338966000660 homodimer binding site [polypeptide binding]; other site 338966000661 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 338966000662 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 338966000663 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 338966000664 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 338966000665 carboxyltransferase (CT) interaction site; other site 338966000666 biotinylation site [posttranslational modification]; other site 338966000667 Protein of unknown function, DUF606; Region: DUF606; pfam04657 338966000668 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966000669 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966000670 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966000671 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 338966000672 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 338966000673 FMN binding site [chemical binding]; other site 338966000674 substrate binding site [chemical binding]; other site 338966000675 putative catalytic residue [active] 338966000676 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 338966000677 dimerization interface [polypeptide binding]; other site 338966000678 putative DNA binding site [nucleotide binding]; other site 338966000679 putative Zn2+ binding site [ion binding]; other site 338966000680 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966000681 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 338966000682 S-adenosylmethionine binding site [chemical binding]; other site 338966000683 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 338966000684 S-adenosylmethionine binding site [chemical binding]; other site 338966000685 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 338966000686 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 338966000687 homotetramer interface [polypeptide binding]; other site 338966000688 ligand binding site [chemical binding]; other site 338966000689 catalytic site [active] 338966000690 NAD binding site [chemical binding]; other site 338966000691 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 338966000692 HAMP domain; Region: HAMP; pfam00672 338966000693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000695 dimer interface [polypeptide binding]; other site 338966000696 putative CheW interface [polypeptide binding]; other site 338966000697 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 338966000698 active site 338966000699 catalytic triad [active] 338966000700 oxyanion hole [active] 338966000701 switch loop; other site 338966000702 S-adenosylmethionine synthetase; Validated; Region: PRK05250 338966000703 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 338966000704 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 338966000705 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 338966000706 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 338966000707 tartrate dehydrogenase; Region: TTC; TIGR02089 338966000708 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 338966000709 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 338966000710 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 338966000711 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 338966000712 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 338966000713 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 338966000714 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 338966000715 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 338966000716 Ligand Binding Site [chemical binding]; other site 338966000717 Molecular Tunnel; other site 338966000718 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 338966000719 Phage Tail Collar Domain; Region: Collar; pfam07484 338966000720 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 338966000721 binding surface 338966000722 TPR motif; other site 338966000723 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966000724 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966000725 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 338966000726 binding surface 338966000727 TPR motif; other site 338966000728 TPR repeat; Region: TPR_11; pfam13414 338966000729 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_5; cd08823 338966000730 putative active site [active] 338966000731 putative substrate binding site [chemical binding]; other site 338966000732 putative cosubstrate binding site; other site 338966000733 catalytic site [active] 338966000734 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 338966000735 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 338966000736 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 338966000737 sulfotransferase; Region: PLN02164 338966000738 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 338966000739 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338966000740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966000741 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 338966000742 Walker A/P-loop; other site 338966000743 ATP binding site [chemical binding]; other site 338966000744 Q-loop/lid; other site 338966000745 ABC transporter signature motif; other site 338966000746 Walker B; other site 338966000747 D-loop; other site 338966000748 H-loop/switch region; other site 338966000749 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 338966000750 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 338966000751 Active Sites [active] 338966000752 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 338966000753 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 338966000754 CysD dimerization site [polypeptide binding]; other site 338966000755 G1 box; other site 338966000756 putative GEF interaction site [polypeptide binding]; other site 338966000757 GTP/Mg2+ binding site [chemical binding]; other site 338966000758 Switch I region; other site 338966000759 G2 box; other site 338966000760 G3 box; other site 338966000761 Switch II region; other site 338966000762 G4 box; other site 338966000763 G5 box; other site 338966000764 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 338966000765 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 338966000766 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...; Region: APSK; cd02027 338966000767 ligand-binding site [chemical binding]; other site 338966000768 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338966000769 Peptidase family U32; Region: Peptidase_U32; pfam01136 338966000770 Collagenase; Region: DUF3656; pfam12392 338966000771 Peptidase family U32; Region: Peptidase_U32; cl03113 338966000772 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966000773 PAS domain; Region: PAS_8; pfam13188 338966000774 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 338966000775 dimer interface [polypeptide binding]; other site 338966000776 phosphorylation site [posttranslational modification] 338966000777 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 338966000778 ATP binding site [chemical binding]; other site 338966000779 Mg2+ binding site [ion binding]; other site 338966000780 G-X-G motif; other site 338966000781 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966000782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000783 active site 338966000784 phosphorylation site [posttranslational modification] 338966000785 intermolecular recognition site; other site 338966000786 dimerization interface [polypeptide binding]; other site 338966000787 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 338966000788 membrane-bound complex binding site; other site 338966000789 hinge residues; other site 338966000790 Staphylococcal nuclease homologues; Region: SNc; smart00318 338966000791 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 338966000792 Catalytic site; other site 338966000793 Helix-turn-helix domain; Region: HTH_17; pfam12728 338966000794 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 338966000795 active site 338966000796 phosphorylation site [posttranslational modification] 338966000797 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 338966000798 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966000799 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 338966000800 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 338966000801 nucleoside/Zn binding site; other site 338966000802 dimer interface [polypeptide binding]; other site 338966000803 catalytic motif [active] 338966000804 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 338966000805 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 338966000806 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 338966000807 Glutamate binding site [chemical binding]; other site 338966000808 homodimer interface [polypeptide binding]; other site 338966000809 NAD binding site [chemical binding]; other site 338966000810 catalytic residues [active] 338966000811 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 338966000812 Colicin V production protein; Region: Colicin_V; pfam02674 338966000813 HAMP domain; Region: HAMP; pfam00672 338966000814 dimerization interface [polypeptide binding]; other site 338966000815 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966000816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966000817 dimer interface [polypeptide binding]; other site 338966000818 putative CheW interface [polypeptide binding]; other site 338966000819 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338966000820 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966000821 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338966000822 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338966000823 Transglycosylase; Region: Transgly; pfam00912 338966000824 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 338966000825 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 338966000826 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 338966000827 CoenzymeA binding site [chemical binding]; other site 338966000828 subunit interaction site [polypeptide binding]; other site 338966000829 PHB binding site; other site 338966000830 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 338966000831 Fe-S cluster binding site [ion binding]; other site 338966000832 active site 338966000833 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 338966000834 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 338966000835 RHS Repeat; Region: RHS_repeat; cl11982 338966000836 RHS Repeat; Region: RHS_repeat; pfam05593 338966000837 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 338966000838 RHS Repeat; Region: RHS_repeat; pfam05593 338966000839 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 338966000840 RHS Repeat; Region: RHS_repeat; pfam05593 338966000841 RHS Repeat; Region: RHS_repeat; pfam05593 338966000842 RHS Repeat; Region: RHS_repeat; pfam05593 338966000843 RHS Repeat; Region: RHS_repeat; pfam05593 338966000844 RHS Repeat; Region: RHS_repeat; pfam05593 338966000845 RHS Repeat; Region: RHS_repeat; pfam05593 338966000846 RHS Repeat; Region: RHS_repeat; pfam05593 338966000847 RHS Repeat; Region: RHS_repeat; pfam05593 338966000848 RHS Repeat; Region: RHS_repeat; pfam05593 338966000849 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 338966000850 PAS fold; Region: PAS_4; pfam08448 338966000851 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 338966000852 putative active site [active] 338966000853 heme pocket [chemical binding]; other site 338966000854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966000855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966000856 metal binding site [ion binding]; metal-binding site 338966000857 active site 338966000858 I-site; other site 338966000859 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 338966000860 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 338966000861 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000863 active site 338966000864 phosphorylation site [posttranslational modification] 338966000865 intermolecular recognition site; other site 338966000866 dimerization interface [polypeptide binding]; other site 338966000867 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 338966000868 Flavoprotein; Region: Flavoprotein; pfam02441 338966000869 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 338966000870 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338966000871 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 338966000872 Rubredoxin; Region: Rubredoxin; pfam00301 338966000873 iron binding site [ion binding]; other site 338966000874 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 338966000875 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 338966000876 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966000877 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 338966000878 putative active site [active] 338966000879 heme pocket [chemical binding]; other site 338966000880 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 338966000881 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 338966000882 ATP binding site [chemical binding]; other site 338966000883 Mg2+ binding site [ion binding]; other site 338966000884 G-X-G motif; other site 338966000885 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000887 active site 338966000888 phosphorylation site [posttranslational modification] 338966000889 intermolecular recognition site; other site 338966000890 dimerization interface [polypeptide binding]; other site 338966000891 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 338966000892 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 338966000893 glutaminase active site [active] 338966000894 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 338966000895 dimer interface [polypeptide binding]; other site 338966000896 active site 338966000897 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 338966000898 dimer interface [polypeptide binding]; other site 338966000899 active site 338966000900 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 338966000901 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 338966000902 substrate binding site [chemical binding]; other site 338966000903 oxyanion hole (OAH) forming residues; other site 338966000904 trimer interface [polypeptide binding]; other site 338966000905 Fic family protein [Function unknown]; Region: COG3177 338966000906 Fic/DOC family; Region: Fic; pfam02661 338966000907 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 338966000908 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 338966000909 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 338966000910 active site 338966000911 metal binding site [ion binding]; metal-binding site 338966000912 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 338966000913 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966000914 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 338966000915 non-specific DNA binding site [nucleotide binding]; other site 338966000916 salt bridge; other site 338966000917 sequence-specific DNA binding site [nucleotide binding]; other site 338966000918 Domain of unknown function (DUF955); Region: DUF955; cl01076 338966000919 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966000920 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966000921 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966000922 AAA domain; Region: AAA_13; pfam13166 338966000923 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966000924 ABC transporter signature motif; other site 338966000925 Walker B; other site 338966000926 D-loop; other site 338966000927 H-loop/switch region; other site 338966000928 transposase/IS protein; Provisional; Region: PRK09183 338966000929 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 338966000930 Walker A motif; other site 338966000931 ATP binding site [chemical binding]; other site 338966000932 Walker B motif; other site 338966000933 arginine finger; other site 338966000934 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 338966000935 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 338966000936 active site 338966000937 catalytic tetrad [active] 338966000938 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 338966000939 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 338966000940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338966000941 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 338966000942 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966000943 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 338966000944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966000945 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 338966000946 DNA binding residues [nucleotide binding] 338966000947 Response regulator receiver domain; Region: Response_reg; pfam00072 338966000948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966000949 active site 338966000950 phosphorylation site [posttranslational modification] 338966000951 intermolecular recognition site; other site 338966000952 dimerization interface [polypeptide binding]; other site 338966000953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966000954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966000955 metal binding site [ion binding]; metal-binding site 338966000956 active site 338966000957 I-site; other site 338966000958 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 338966000959 dimerization interface [polypeptide binding]; other site 338966000960 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 338966000961 PAS fold; Region: PAS_3; pfam08447 338966000962 putative active site [active] 338966000963 heme pocket [chemical binding]; other site 338966000964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966000965 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 338966000966 dimer interface [polypeptide binding]; other site 338966000967 phosphorylation site [posttranslational modification] 338966000968 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 338966000969 ATP binding site [chemical binding]; other site 338966000970 Mg2+ binding site [ion binding]; other site 338966000971 G-X-G motif; other site 338966000972 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 338966000973 catalytic residues [active] 338966000974 dimer interface [polypeptide binding]; other site 338966000975 Protein of unknown function (DUF523); Region: DUF523; pfam04463 338966000976 Uncharacterized conserved protein [Function unknown]; Region: COG3272 338966000977 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 338966000978 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966000979 Protein of unknown function, DUF393; Region: DUF393; pfam04134 338966000980 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 338966000981 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 338966000982 catalytic residues [active] 338966000983 dimer interface [polypeptide binding]; other site 338966000984 SOUL heme-binding protein; Region: SOUL; pfam04832 338966000985 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 338966000986 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 338966000987 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 338966000988 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 338966000989 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 338966000990 S-adenosylmethionine binding site [chemical binding]; other site 338966000991 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 338966000992 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 338966000993 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966000994 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 338966000995 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 338966000996 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966000997 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 338966000998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966000999 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 338966001000 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 338966001001 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 338966001002 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966001003 Transposase, Mutator family; Region: Transposase_mut; pfam00872 338966001004 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 338966001005 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966001006 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 338966001007 Transposase, Mutator family; Region: Transposase_mut; pfam00872 338966001008 MULE transposase domain; Region: MULE; pfam10551 338966001009 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966001010 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966001011 dimer interface [polypeptide binding]; other site 338966001012 putative CheW interface [polypeptide binding]; other site 338966001013 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 338966001014 non-specific DNA binding site [nucleotide binding]; other site 338966001015 salt bridge; other site 338966001016 sequence-specific DNA binding site [nucleotide binding]; other site 338966001017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966001018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966001019 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966001020 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966001021 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966001022 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966001023 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966001024 FtsX-like permease family; Region: FtsX; pfam02687 338966001025 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966001026 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966001027 Walker A/P-loop; other site 338966001028 ATP binding site [chemical binding]; other site 338966001029 Q-loop/lid; other site 338966001030 ABC transporter signature motif; other site 338966001031 Walker B; other site 338966001032 D-loop; other site 338966001033 H-loop/switch region; other site 338966001034 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 338966001035 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 338966001036 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 338966001037 catalytic residues [active] 338966001038 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 338966001039 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 338966001040 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 338966001041 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 338966001042 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966001043 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 338966001044 non-specific DNA binding site [nucleotide binding]; other site 338966001045 salt bridge; other site 338966001046 sequence-specific DNA binding site [nucleotide binding]; other site 338966001047 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 338966001048 non-specific DNA binding site [nucleotide binding]; other site 338966001049 salt bridge; other site 338966001050 sequence-specific DNA binding site [nucleotide binding]; other site 338966001051 WYL domain; Region: WYL; pfam13280 338966001052 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 338966001053 nucleotide binding site [chemical binding]; other site 338966001054 putative NEF/HSP70 interaction site [polypeptide binding]; other site 338966001055 SBD interface [polypeptide binding]; other site 338966001056 SlyX; Region: SlyX; cl01090 338966001057 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966001058 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 338966001059 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 338966001060 DNA binding residues [nucleotide binding] 338966001061 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 338966001062 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966001063 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 338966001064 Walker A motif; other site 338966001065 ATP binding site [chemical binding]; other site 338966001066 Walker B motif; other site 338966001067 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 338966001068 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 338966001069 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966001070 active site 338966001071 substrate binding site [chemical binding]; other site 338966001072 Mg2+ binding site [ion binding]; other site 338966001073 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 338966001074 OB-fold nucleic acid binding domain; Region: tRNA_anti_2; pfam13742 338966001075 generic binding surface II; other site 338966001076 generic binding surface I; other site 338966001077 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 338966001078 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 338966001079 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 338966001080 IHF - DNA interface [nucleotide binding]; other site 338966001081 IHF dimer interface [polypeptide binding]; other site 338966001082 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966001083 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 338966001084 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 338966001085 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 338966001086 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 338966001087 AAA domain; Region: AAA_30; pfam13604 338966001088 Family description; Region: UvrD_C_2; pfam13538 338966001089 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966001090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966001091 Uncharacterized conserved protein [Function unknown]; Region: COG2135 338966001092 DNA polymerase IV; Reviewed; Region: PRK03103 338966001093 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966001094 active site 338966001095 DNA binding site [nucleotide binding] 338966001096 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966001097 LexA repressor; Validated; Region: PRK00215 338966001098 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 338966001099 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 338966001100 Catalytic site [active] 338966001101 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966001102 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...; Region: LT_GEWL; cd00254 338966001103 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966001104 catalytic residue [active] 338966001105 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 338966001106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966001107 Zn2+ binding site [ion binding]; other site 338966001108 Mg2+ binding site [ion binding]; other site 338966001109 F plasmid transfer operon protein; Region: TraF; pfam13728 338966001110 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 338966001111 catalytic residues [active] 338966001112 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 338966001113 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338966001114 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 338966001115 dimer interface [polypeptide binding]; other site 338966001116 ssDNA binding site [nucleotide binding]; other site 338966001117 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966001118 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 338966001119 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 338966001120 TSCPD domain; Region: TSCPD; pfam12637 338966001121 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966001122 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 338966001123 Walker A motif; other site 338966001124 ATP binding site [chemical binding]; other site 338966001125 Walker B motif; other site 338966001126 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 338966001127 WGR domain; Region: WGR; cl01581 338966001128 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966001129 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 338966001130 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 338966001131 metal ion-dependent adhesion site (MIDAS); other site 338966001132 CHC2 zinc finger; Region: zf-CHC2; cl17510 338966001133 hypothetical protein; Reviewed; Region: PRK00024 338966001134 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966001135 MPN+ (JAMM) motif; other site 338966001136 Zinc-binding site [ion binding]; other site 338966001137 Fic family protein [Function unknown]; Region: COG3177 338966001138 Fic/DOC family; Region: Fic; pfam02661 338966001139 Predicted transcriptional regulator [Transcription]; Region: COG2378 338966001140 WYL domain; Region: WYL; pfam13280 338966001141 Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]; Region: NrdD; COG1328 338966001142 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 338966001143 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 338966001144 ligand binding site [chemical binding]; other site 338966001145 active site 338966001146 UGI interface [polypeptide binding]; other site 338966001147 catalytic site [active] 338966001148 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 338966001149 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 338966001150 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 338966001151 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 338966001152 active site 338966001153 DNA binding site [nucleotide binding] 338966001154 Int/Topo IB signature motif; other site 338966001155 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 338966001156 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 338966001157 active site 338966001158 substrate binding site [chemical binding]; other site 338966001159 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 338966001160 active site 338966001161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966001162 ABC transporter signature motif; other site 338966001163 Walker B; other site 338966001164 D-loop; other site 338966001165 H-loop/switch region; other site 338966001166 Restriction endonuclease [Defense mechanisms]; Region: COG3587 338966001167 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 338966001168 ATP binding site [chemical binding]; other site 338966001169 putative Mg++ binding site [ion binding]; other site 338966001170 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 338966001171 DNA methylase; Region: N6_N4_Mtase; pfam01555 338966001172 DNA methylase; Region: N6_N4_Mtase; pfam01555 338966001173 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 338966001174 AAA domain; Region: AAA_17; pfam13207 338966001175 Family description; Region: UvrD_C_2; pfam13538 338966001176 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 338966001177 putative active site [active] 338966001178 catalytic site [active] 338966001179 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 338966001180 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 338966001181 ATP binding site [chemical binding]; other site 338966001182 putative Mg++ binding site [ion binding]; other site 338966001183 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 338966001184 nucleotide binding region [chemical binding]; other site 338966001185 ATP-binding site [chemical binding]; other site 338966001186 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 338966001187 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 338966001188 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 338966001189 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 338966001190 TraU protein; Region: TraU; pfam06834 338966001191 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 338966001192 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 338966001193 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 338966001194 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 338966001195 Domain of unknown function DUF87; Region: DUF87; pfam01935 338966001196 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 338966001197 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 338966001198 TraK protein; Region: TraK; pfam06586 338966001199 TraE protein; Region: TraE; cl05060 338966001200 TraL protein; Region: TraL; cl06278 338966001201 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 338966001202 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 338966001203 dimerization domain [polypeptide binding]; other site 338966001204 dimer interface [polypeptide binding]; other site 338966001205 catalytic residues [active] 338966001206 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966001207 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001208 ligand binding site [chemical binding]; other site 338966001209 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 338966001210 AAA domain; Region: AAA_14; pfam13173 338966001211 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966001212 HipA-like N-terminal domain; Region: HipA_N; pfam07805 338966001213 HipA-like C-terminal domain; Region: HipA_C; pfam07804 338966001214 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 338966001215 non-specific DNA binding site [nucleotide binding]; other site 338966001216 salt bridge; other site 338966001217 sequence-specific DNA binding site [nucleotide binding]; other site 338966001218 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338966001219 nucleotide binding site [chemical binding]; other site 338966001220 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 338966001221 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; cl17257 338966001222 DNA binding residues [nucleotide binding] 338966001223 TrfA protein; Region: TrfA; pfam07042 338966001224 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 338966001225 Predicted transcriptional regulator [Transcription]; Region: COG2932 338966001226 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 338966001227 Catalytic site [active] 338966001228 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966001229 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 338966001230 catalytic residues [active] 338966001231 catalytic nucleophile [active] 338966001232 Recombinase; Region: Recombinase; pfam07508 338966001233 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966001234 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966001235 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 338966001236 catalytic residues [active] 338966001237 catalytic nucleophile [active] 338966001238 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966001239 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966001240 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966001241 Synaptic Site I dimer interface [polypeptide binding]; other site 338966001242 DNA binding site [nucleotide binding] 338966001243 Recombinase; Region: Recombinase; pfam07508 338966001244 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966001245 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 338966001246 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966001247 catalytic residues [active] 338966001248 catalytic nucleophile [active] 338966001249 Recombinase; Region: Recombinase; pfam07508 338966001250 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 338966001251 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 338966001252 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 338966001253 Walker A motif; other site 338966001254 ATP binding site [chemical binding]; other site 338966001255 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 338966001256 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 338966001257 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 338966001258 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 338966001259 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 338966001260 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 338966001261 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 338966001262 FAD binding site [chemical binding]; other site 338966001263 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 338966001264 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 338966001265 active site 338966001266 Int/Topo IB signature motif; other site 338966001267 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 338966001268 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 338966001269 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338966001270 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 338966001271 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966001272 aromatic acid decarboxylase; Validated; Region: PRK05920 338966001273 Flavoprotein; Region: Flavoprotein; pfam02441 338966001274 prenyltransferase; Reviewed; Region: ubiA; PRK12886 338966001275 UbiA prenyltransferase family; Region: UbiA; pfam01040 338966001276 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 338966001277 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 338966001278 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 338966001279 glycogen synthase; Provisional; Region: glgA; PRK00654 338966001280 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 338966001281 ADP-binding pocket [chemical binding]; other site 338966001282 homodimer interface [polypeptide binding]; other site 338966001283 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 338966001284 active site 338966001285 intersubunit interactions; other site 338966001286 catalytic residue [active] 338966001287 YHS domain; Region: YHS; pfam04945 338966001288 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 338966001289 catalytic center binding site [active] 338966001290 ATP binding site [chemical binding]; other site 338966001291 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966001292 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 338966001293 putative NAD(P) binding site [chemical binding]; other site 338966001294 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 338966001295 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 338966001296 dimer interface [polypeptide binding]; other site 338966001297 PYR/PP interface [polypeptide binding]; other site 338966001298 TPP binding site [chemical binding]; other site 338966001299 substrate binding site [chemical binding]; other site 338966001300 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 338966001301 Domain of unknown function; Region: EKR; pfam10371 338966001302 4Fe-4S binding domain; Region: Fer4_6; pfam12837 338966001303 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 338966001304 TPP-binding site [chemical binding]; other site 338966001305 dimer interface [polypeptide binding]; other site 338966001306 recombination protein RecR; Reviewed; Region: recR; PRK00076 338966001307 RecR protein; Region: RecR; pfam02132 338966001308 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 338966001309 putative active site [active] 338966001310 putative metal-binding site [ion binding]; other site 338966001311 tetramer interface [polypeptide binding]; other site 338966001312 hypothetical protein; Validated; Region: PRK00153 338966001313 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 338966001314 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 338966001315 Walker A motif; other site 338966001316 ATP binding site [chemical binding]; other site 338966001317 Walker B motif; other site 338966001318 arginine finger; other site 338966001319 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 338966001320 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 338966001321 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001322 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001323 MOSC domain; Region: MOSC; pfam03473 338966001324 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 338966001325 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 338966001326 FeS/SAM binding site; other site 338966001327 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 338966001328 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 338966001329 Walker A motif; other site 338966001330 hypothetical protein; Provisional; Region: PRK10410 338966001331 4Fe-4S binding domain; Region: Fer4_6; pfam12837 338966001332 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 338966001333 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...; Region: Macro_Appr_pase_like; cd02908 338966001334 putative active site [active] 338966001335 putative ADP-ribose binding site [chemical binding]; other site 338966001336 Uncharacterized conserved protein [Function unknown]; Region: COG4748 338966001337 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 338966001338 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 338966001339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966001340 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966001341 ABC transporter; Region: ABC_tran_2; pfam12848 338966001342 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966001343 Uncharacterized conserved protein [Function unknown]; Region: COG1359 338966001344 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 338966001345 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 338966001346 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 338966001347 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966001348 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 338966001349 putative dimer interface [polypeptide binding]; other site 338966001350 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966001351 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 338966001352 putative dimer interface [polypeptide binding]; other site 338966001353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966001354 Zn2+ binding site [ion binding]; other site 338966001355 Mg2+ binding site [ion binding]; other site 338966001356 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 338966001357 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001358 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001359 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 338966001360 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 338966001361 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 338966001362 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 338966001363 TPP-binding site [chemical binding]; other site 338966001364 PilZ domain; Region: PilZ; pfam07238 338966001365 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 338966001366 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966001367 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001368 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 338966001369 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 338966001370 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 338966001371 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 338966001372 dimer interface [polypeptide binding]; other site 338966001373 PYR/PP interface [polypeptide binding]; other site 338966001374 TPP binding site [chemical binding]; other site 338966001375 substrate binding site [chemical binding]; other site 338966001376 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 338966001377 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 338966001378 TPP-binding site [chemical binding]; other site 338966001379 putative dimer interface [polypeptide binding]; other site 338966001380 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 338966001381 FMN binding site [chemical binding]; other site 338966001382 dimer interface [polypeptide binding]; other site 338966001383 Predicted permeases [General function prediction only]; Region: COG0679 338966001384 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 338966001385 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966001386 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 338966001387 Protein export membrane protein; Region: SecD_SecF; cl14618 338966001388 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 338966001389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966001390 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966001391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966001392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966001393 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 338966001394 PemK-like protein; Region: PemK; pfam02452 338966001395 hydrogenase 4 subunit B; Validated; Region: PRK06521 338966001396 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966001397 NADH dehydrogenase; Region: NADHdh; cl00469 338966001398 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 338966001399 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00197 338966001400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966001401 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 338966001402 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338966001403 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338966001404 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 338966001405 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338966001406 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 338966001407 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 338966001408 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 338966001409 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 338966001410 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 338966001411 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 338966001412 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 338966001413 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966001414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966001415 Walker A/P-loop; other site 338966001416 ATP binding site [chemical binding]; other site 338966001417 Q-loop/lid; other site 338966001418 ABC transporter signature motif; other site 338966001419 Walker B; other site 338966001420 D-loop; other site 338966001421 H-loop/switch region; other site 338966001422 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 338966001423 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 338966001424 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 338966001425 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 338966001426 ribonuclease G; Provisional; Region: PRK11712 338966001427 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 338966001428 homodimer interface [polypeptide binding]; other site 338966001429 oligonucleotide binding site [chemical binding]; other site 338966001430 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 338966001431 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 338966001432 FeS/SAM binding site; other site 338966001433 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 338966001434 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 338966001435 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 338966001436 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966001437 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 338966001438 ATP binding site [chemical binding]; other site 338966001439 putative Mg++ binding site [ion binding]; other site 338966001440 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 338966001441 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 338966001442 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338966001443 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; cl17173 338966001444 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338966001445 Virulence protein [General function prediction only]; Region: COG3943 338966001446 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966001447 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338966001448 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338966001449 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 338966001450 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 338966001451 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966001452 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 338966001453 S-adenosylmethionine binding site [chemical binding]; other site 338966001454 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966001455 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 338966001456 Walker A motif; other site 338966001457 ATP binding site [chemical binding]; other site 338966001458 Walker B motif; other site 338966001459 arginine finger; other site 338966001460 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966001461 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 338966001462 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 338966001463 PAAR motif; Region: PAAR_motif; pfam05488 338966001464 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 338966001465 Phage protein D [General function prediction only]; Region: COG3500 338966001466 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 338966001467 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 338966001468 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 338966001469 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 338966001470 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966001471 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 338966001472 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 338966001473 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966001474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001475 active site 338966001476 phosphorylation site [posttranslational modification] 338966001477 intermolecular recognition site; other site 338966001478 dimerization interface [polypeptide binding]; other site 338966001479 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 338966001480 DNA binding residues [nucleotide binding] 338966001481 dimerization interface [polypeptide binding]; other site 338966001482 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 338966001483 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966001484 putative active site [active] 338966001485 heme pocket [chemical binding]; other site 338966001486 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 338966001487 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 338966001488 putative active site [active] 338966001489 heme pocket [chemical binding]; other site 338966001490 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 338966001491 putative active site [active] 338966001492 heme pocket [chemical binding]; other site 338966001493 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 338966001494 dimer interface [polypeptide binding]; other site 338966001495 phosphorylation site [posttranslational modification] 338966001496 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 338966001497 ATP binding site [chemical binding]; other site 338966001498 Mg2+ binding site [ion binding]; other site 338966001499 G-X-G motif; other site 338966001500 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966001501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001502 active site 338966001503 phosphorylation site [posttranslational modification] 338966001504 intermolecular recognition site; other site 338966001505 dimerization interface [polypeptide binding]; other site 338966001506 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 338966001507 Walker A motif; other site 338966001508 ATP binding site [chemical binding]; other site 338966001509 Walker B motif; other site 338966001510 arginine finger; other site 338966001511 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966001512 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 338966001513 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966001514 putative acyl-acceptor binding pocket; other site 338966001515 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 338966001516 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966001517 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 338966001518 ABC transporter ATPase component; Reviewed; Region: PRK11147 338966001519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966001520 Walker A/P-loop; other site 338966001521 ATP binding site [chemical binding]; other site 338966001522 Q-loop/lid; other site 338966001523 ABC transporter signature motif; other site 338966001524 Walker B; other site 338966001525 D-loop; other site 338966001526 H-loop/switch region; other site 338966001527 ABC transporter; Region: ABC_tran_2; pfam12848 338966001528 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966001529 YtxH-like protein; Region: YtxH; pfam12732 338966001530 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 338966001531 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 338966001532 homodimer interface [polypeptide binding]; other site 338966001533 Walker A motif; other site 338966001534 ATP binding site [chemical binding]; other site 338966001535 hydroxycobalamin binding site [chemical binding]; other site 338966001536 Walker B motif; other site 338966001537 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 338966001538 B12 binding site [chemical binding]; other site 338966001539 cobalt ligand [ion binding]; other site 338966001540 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 338966001541 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 338966001542 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 338966001543 Walker A; other site 338966001544 G1 box; other site 338966001545 GTP/Mg2+ binding site [chemical binding]; other site 338966001546 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 338966001547 YtxH-like protein; Region: YtxH; pfam12732 338966001548 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...; Region: LT_GEWL; cd00254 338966001549 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966001550 catalytic residue [active] 338966001551 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966001552 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966001553 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 338966001554 binding surface 338966001555 TPR motif; other site 338966001556 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 338966001557 metal ion-dependent adhesion site (MIDAS); other site 338966001558 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001559 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966001560 ligand binding site [chemical binding]; other site 338966001561 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966001562 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001563 ligand binding site [chemical binding]; other site 338966001564 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966001565 PAS domain S-box; Region: sensory_box; TIGR00229 338966001566 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 338966001567 putative active site [active] 338966001568 heme pocket [chemical binding]; other site 338966001569 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 338966001570 GAF domain; Region: GAF_3; pfam13492 338966001571 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 338966001572 Walker A motif; other site 338966001573 ATP binding site [chemical binding]; other site 338966001574 Walker B motif; other site 338966001575 arginine finger; other site 338966001576 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966001577 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 338966001578 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 338966001579 Paraquat-inducible protein A; Region: PqiA; pfam04403 338966001580 Paraquat-inducible protein A; Region: PqiA; pfam04403 338966001581 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 338966001582 mce related protein; Region: MCE; pfam02470 338966001583 mce related protein; Region: MCE; pfam02470 338966001584 mce related protein; Region: MCE; pfam02470 338966001585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 338966001586 Protein of unknown function (DUF330); Region: DUF330; pfam03886 338966001587 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 338966001588 Domain of unknown function DUF20; Region: UPF0118; pfam01594 338966001589 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 338966001590 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_1; cd11347 338966001591 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 338966001592 active site 338966001593 catalytic site [active] 338966001594 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966001595 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966001596 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966001597 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 338966001598 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966001599 Ion channel; Region: Ion_trans_2; pfam07885 338966001600 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 338966001601 homodimer interface [polypeptide binding]; other site 338966001602 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 338966001603 active site pocket [active] 338966001604 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 338966001605 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 338966001606 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 338966001607 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 338966001608 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 338966001609 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 338966001610 active site 338966001611 catalytic site [active] 338966001612 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966001613 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966001614 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 338966001615 dimer interface [polypeptide binding]; other site 338966001616 phosphorylation site [posttranslational modification] 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 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 338966001622 DNA repair protein RadA; Provisional; Region: PRK11823 338966001623 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 338966001624 Walker A motif/ATP binding site; other site 338966001625 ATP binding site [chemical binding]; other site 338966001626 Walker B motif; other site 338966001627 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; cd00020 338966001628 HEAT repeats; Region: HEAT_2; pfam13646 338966001629 protein binding surface [polypeptide binding]; other site 338966001630 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 338966001631 HEAT repeats; Region: HEAT_2; pfam13646 338966001632 protein binding surface [polypeptide binding]; other site 338966001633 HEAT repeats; Region: HEAT_2; pfam13646 338966001634 Transglycosylase; Region: Transgly; pfam00912 338966001635 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 338966001636 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 338966001637 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 338966001638 FeS/SAM binding site; other site 338966001639 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 338966001640 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 338966001641 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 338966001642 dimerization interface [polypeptide binding]; other site 338966001643 PAS domain S-box; Region: sensory_box; TIGR00229 338966001644 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 338966001645 putative active site [active] 338966001646 heme pocket [chemical binding]; other site 338966001647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966001648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001649 metal binding site [ion binding]; metal-binding site 338966001650 active site 338966001651 I-site; other site 338966001652 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 338966001653 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 338966001654 ATP binding site [chemical binding]; other site 338966001655 Mg++ binding site [ion binding]; other site 338966001656 motif III; other site 338966001657 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 338966001658 nucleotide binding region [chemical binding]; other site 338966001659 ATP-binding site [chemical binding]; other site 338966001660 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 338966001661 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 338966001662 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 338966001663 substrate binding site [chemical binding]; other site 338966001664 ATP binding site [chemical binding]; other site 338966001665 TPR repeat; Region: TPR_11; pfam13414 338966001666 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 338966001667 binding surface 338966001668 TPR motif; other site 338966001669 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 338966001670 binding surface 338966001671 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966001672 TPR motif; other site 338966001673 TPR repeat; Region: TPR_11; pfam13414 338966001674 Helix-turn-helix domain; Region: HTH_25; pfam13413 338966001675 Response regulator receiver domain; Region: Response_reg; pfam00072 338966001676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001677 active site 338966001678 phosphorylation site [posttranslational modification] 338966001679 intermolecular recognition site; other site 338966001680 dimerization interface [polypeptide binding]; other site 338966001681 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 338966001682 Ligand Binding Site [chemical binding]; other site 338966001683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 338966001684 active site 338966001685 phosphorylation site [posttranslational modification] 338966001686 intermolecular recognition site; other site 338966001687 dimerization interface [polypeptide binding]; other site 338966001688 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 338966001689 phosphorylation site [posttranslational modification] 338966001690 dimer interface [polypeptide binding]; other site 338966001691 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 338966001692 ATP binding site [chemical binding]; other site 338966001693 Mg2+ binding site [ion binding]; other site 338966001694 G-X-G motif; other site 338966001695 Response regulator receiver domain; Region: Response_reg; pfam00072 338966001696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001697 active site 338966001698 phosphorylation site [posttranslational modification] 338966001699 intermolecular recognition site; other site 338966001700 dimerization interface [polypeptide binding]; other site 338966001701 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 338966001702 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 338966001703 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 338966001704 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...; Region: YhaM_OBF_like; cd04492 338966001705 generic binding surface I; other site 338966001706 generic binding surface II; other site 338966001707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966001708 Zn2+ binding site [ion binding]; other site 338966001709 Mg2+ binding site [ion binding]; other site 338966001710 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 338966001711 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 338966001712 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966001713 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966001714 ligand binding site [chemical binding]; other site 338966001715 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 338966001716 dimer interface [polypeptide binding]; other site 338966001717 active site 338966001718 Schiff base residues; other site 338966001719 TraB family; Region: TraB; cl12050 338966001720 cell division protein FtsN; Provisional; Region: PRK12757 338966001721 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966001722 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338966001723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966001724 Walker A/P-loop; other site 338966001725 ATP binding site [chemical binding]; other site 338966001726 Q-loop/lid; other site 338966001727 ABC transporter signature motif; other site 338966001728 Walker B; other site 338966001729 D-loop; other site 338966001730 H-loop/switch region; other site 338966001731 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 338966001732 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 338966001733 dimer interface [polypeptide binding]; other site 338966001734 ssDNA binding site [nucleotide binding]; other site 338966001735 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966001736 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 338966001737 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 338966001738 isocitrate dehydrogenase; Validated; Region: PRK07362 338966001739 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 338966001740 endonuclease IV; Provisional; Region: PRK01060 338966001741 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 338966001742 AP (apurinic/apyrimidinic) site pocket; other site 338966001743 DNA interaction; other site 338966001744 Metal-binding active site; metal-binding site 338966001745 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338966001746 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 338966001747 dimer interface [polypeptide binding]; other site 338966001748 putative functional site; other site 338966001749 putative MPT binding site; other site 338966001750 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966001751 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966001752 GAF domain; Region: GAF; pfam01590 338966001753 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 338966001754 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966001755 Walker A motif; other site 338966001756 ATP binding site [chemical binding]; other site 338966001757 Walker B motif; other site 338966001758 arginine finger; other site 338966001759 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966001760 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 338966001761 Integrase core domain; Region: rve; pfam00665 338966001762 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966001763 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 338966001764 Int/Topo IB signature motif; other site 338966001765 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 338966001766 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966001767 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 338966001768 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966001769 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 338966001770 Rubredoxin; Region: Rubredoxin; pfam00301 338966001771 iron binding site [ion binding]; other site 338966001772 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966001773 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966001774 diiron binding motif [ion binding]; other site 338966001775 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 338966001776 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 338966001777 TPP-binding site [chemical binding]; other site 338966001778 putative dimer interface [polypeptide binding]; other site 338966001779 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: vorA; PRK08366 338966001780 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 338966001781 dimer interface [polypeptide binding]; other site 338966001782 PYR/PP interface [polypeptide binding]; other site 338966001783 TPP binding site [chemical binding]; other site 338966001784 substrate binding site [chemical binding]; other site 338966001785 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 338966001786 4Fe-4S binding domain; Region: Fer4; pfam00037 338966001787 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966001788 AMP-binding domain protein; Validated; Region: PRK08315 338966001789 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966001790 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 338966001791 acyl-activating enzyme (AAE) consensus motif; other site 338966001792 putative AMP binding site [chemical binding]; other site 338966001793 putative active site [active] 338966001794 putative CoA binding site [chemical binding]; other site 338966001795 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 338966001796 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 338966001797 non-specific DNA binding site [nucleotide binding]; other site 338966001798 salt bridge; other site 338966001799 sequence-specific DNA binding site [nucleotide binding]; other site 338966001800 Cupin domain; Region: Cupin_2; pfam07883 338966001801 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 338966001802 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 338966001803 4Fe-4S binding domain; Region: Fer4; pfam00037 338966001804 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966001805 4Fe-4S binding domain; Region: Fer4; pfam00037 338966001806 2-isopropylmalate synthase; Validated; Region: PRK00915 338966001807 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 338966001808 active site 338966001809 catalytic residues [active] 338966001810 metal binding site [ion binding]; metal-binding site 338966001811 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 338966001812 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 338966001813 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 338966001814 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 338966001815 homodimer interface [polypeptide binding]; other site 338966001816 NADP binding site [chemical binding]; other site 338966001817 substrate binding site [chemical binding]; other site 338966001818 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 338966001819 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 338966001820 active site 338966001821 tetramer interface; other site 338966001822 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 338966001823 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 338966001824 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 338966001825 dimer interface [polypeptide binding]; other site 338966001826 decamer (pentamer of dimers) interface [polypeptide binding]; other site 338966001827 catalytic triad [active] 338966001828 peroxidatic and resolving cysteines [active] 338966001829 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 338966001830 Nitrogen regulatory protein P-II; Region: P-II; smart00938 338966001831 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 338966001832 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 338966001833 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 338966001834 dimer interface [polypeptide binding]; other site 338966001835 phosphorylation site [posttranslational modification] 338966001836 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 338966001837 ATP binding site [chemical binding]; other site 338966001838 Mg2+ binding site [ion binding]; other site 338966001839 G-X-G motif; other site 338966001840 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 338966001841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966001842 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 338966001843 putative NAD(P) binding site [chemical binding]; other site 338966001844 active site 338966001845 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 338966001846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966001847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001848 metal binding site [ion binding]; metal-binding site 338966001849 active site 338966001850 I-site; other site 338966001851 Predicted membrane protein [Function unknown]; Region: COG1238 338966001852 Predicted transcriptional regulator [Transcription]; Region: COG2378 338966001853 HTH domain; Region: HTH_11; pfam08279 338966001854 WYL domain; Region: WYL; pfam13280 338966001855 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 338966001856 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 338966001857 motif II; other site 338966001858 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 338966001859 putative active site [active] 338966001860 dimerization interface [polypeptide binding]; other site 338966001861 putative tRNAtyr binding site [nucleotide binding]; other site 338966001862 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 338966001863 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 338966001864 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 338966001865 ATP binding site [chemical binding]; other site 338966001866 putative Mg++ binding site [ion binding]; other site 338966001867 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 338966001868 nucleotide binding region [chemical binding]; other site 338966001869 ATP-binding site [chemical binding]; other site 338966001870 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 338966001871 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 338966001872 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 338966001873 Substrate binding site; other site 338966001874 Mg++ binding site; other site 338966001875 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 338966001876 active site 338966001877 substrate binding site [chemical binding]; other site 338966001878 CoA binding site [chemical binding]; other site 338966001879 Response regulator receiver domain; Region: Response_reg; pfam00072 338966001880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001881 active site 338966001882 phosphorylation site [posttranslational modification] 338966001883 intermolecular recognition site; other site 338966001884 dimerization interface [polypeptide binding]; other site 338966001885 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 338966001886 PAS fold; Region: PAS_3; pfam08447 338966001887 putative active site [active] 338966001888 heme pocket [chemical binding]; other site 338966001889 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966001890 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966001891 metal binding site [ion binding]; metal-binding site 338966001892 active site 338966001893 I-site; other site 338966001894 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 338966001895 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 338966001896 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338966001897 active site 338966001898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966001899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966001900 active site 338966001901 phosphorylation site [posttranslational modification] 338966001902 intermolecular recognition site; other site 338966001903 dimerization interface [polypeptide binding]; other site 338966001904 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 338966001905 DNA binding site [nucleotide binding] 338966001906 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966001907 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 338966001908 dimer interface [polypeptide binding]; other site 338966001909 phosphorylation site [posttranslational modification] 338966001910 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 338966001911 ATP binding site [chemical binding]; other site 338966001912 Mg2+ binding site [ion binding]; other site 338966001913 G-X-G motif; other site 338966001914 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 338966001915 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 338966001916 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 338966001917 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 338966001918 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 338966001919 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 338966001920 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 338966001921 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966001922 metal binding triad; other site 338966001923 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966001924 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966001925 metal binding triad; other site 338966001926 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966001927 Protein of unknown function DUF116; Region: DUF116; pfam01976 338966001928 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 338966001929 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 338966001930 putative active site [active] 338966001931 substrate binding site [chemical binding]; other site 338966001932 putative cosubstrate binding site; other site 338966001933 catalytic site [active] 338966001934 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 338966001935 substrate binding site [chemical binding]; other site 338966001936 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 338966001937 active site 338966001938 catalytic residues [active] 338966001939 metal binding site [ion binding]; metal-binding site 338966001940 HDOD domain; Region: HDOD; pfam08668 338966001941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 338966001942 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 338966001943 TPR motif; other site 338966001944 binding surface 338966001945 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 338966001946 binding surface 338966001947 TPR motif; other site 338966001948 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 338966001949 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 338966001950 binding surface 338966001951 TPR motif; other site 338966001952 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 338966001953 binding surface 338966001954 TPR motif; other site 338966001955 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 338966001956 binding surface 338966001957 TPR motif; other site 338966001958 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 338966001959 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 338966001960 active site 338966001961 catalytic site [active] 338966001962 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 338966001963 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 338966001964 GDP-binding site [chemical binding]; other site 338966001965 ACT binding site; other site 338966001966 IMP binding site; other site 338966001967 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 338966001968 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...; Region: HisRS-like_core; cd00773 338966001969 dimer interface [polypeptide binding]; other site 338966001970 motif 1; other site 338966001971 active site 338966001972 motif 2; other site 338966001973 motif 3; other site 338966001974 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 338966001975 anticodon binding site; other site 338966001976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966001977 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966001978 dimer interface [polypeptide binding]; other site 338966001979 substrate binding site [chemical binding]; other site 338966001980 metal binding site [ion binding]; metal-binding site 338966001981 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 338966001982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966001983 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 338966001984 non-specific DNA binding site [nucleotide binding]; other site 338966001985 salt bridge; other site 338966001986 sequence-specific DNA binding site [nucleotide binding]; other site 338966001987 Cupin domain; Region: Cupin_2; pfam07883 338966001988 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966001989 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 338966001990 Cysteine-rich domain; Region: CCG; pfam02754 338966001991 Cysteine-rich domain; Region: CCG; pfam02754 338966001992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966001993 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966001994 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966001995 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 338966001996 Glucose inhibited division protein A; Region: GIDA; pfam01134 338966001997 DNA topoisomerase I; Validated; Region: PRK06599 338966001998 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 338966001999 active site 338966002000 interdomain interaction site; other site 338966002001 putative metal-binding site [ion binding]; other site 338966002002 nucleotide binding site [chemical binding]; other site 338966002003 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 338966002004 domain I; other site 338966002005 DNA binding groove [nucleotide binding] 338966002006 phosphate binding site [ion binding]; other site 338966002007 domain II; other site 338966002008 domain III; other site 338966002009 nucleotide binding site [chemical binding]; other site 338966002010 catalytic site [active] 338966002011 domain IV; other site 338966002012 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966002013 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966002014 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 338966002015 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 338966002016 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 338966002017 DNA protecting protein DprA; Region: dprA; TIGR00732 338966002018 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 338966002019 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966002020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 338966002021 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 338966002022 binding surface 338966002023 TPR motif; other site 338966002024 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 338966002025 Peptidase family U32; Region: Peptidase_U32; pfam01136 338966002026 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 338966002027 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 338966002028 replicative DNA helicase; Region: DnaB; TIGR00665 338966002029 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 338966002030 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 338966002031 Walker A motif; other site 338966002032 ATP binding site [chemical binding]; other site 338966002033 Walker B motif; other site 338966002034 DNA binding loops [nucleotide binding] 338966002035 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966002036 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966002037 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966002038 Walker A motif; other site 338966002039 ATP binding site [chemical binding]; other site 338966002040 Walker B motif; other site 338966002041 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966002042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966002043 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 338966002044 Walker A motif; other site 338966002045 Walker A/P-loop; other site 338966002046 ATP binding site [chemical binding]; other site 338966002047 ATP binding site [chemical binding]; other site 338966002048 Walker B motif; other site 338966002049 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 338966002050 trimer interface [polypeptide binding]; other site 338966002051 dimer interface [polypeptide binding]; other site 338966002052 putative active site [active] 338966002053 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 338966002054 MPT binding site; other site 338966002055 trimer interface [polypeptide binding]; other site 338966002056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966002057 Walker A/P-loop; other site 338966002058 ATP binding site [chemical binding]; other site 338966002059 AAA domain; Region: AAA_21; pfam13304 338966002060 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 338966002061 MPT binding site; other site 338966002062 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966002063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002064 metal binding site [ion binding]; metal-binding site 338966002065 active site 338966002066 I-site; other site 338966002067 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 338966002068 putative FMN binding site [chemical binding]; other site 338966002069 NADPH bind site [chemical binding]; other site 338966002070 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 338966002071 GIY-YIG motif/motif A; other site 338966002072 putative active site [active] 338966002073 putative metal binding site [ion binding]; other site 338966002074 YaeQ protein; Region: YaeQ; pfam07152 338966002075 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 338966002076 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 338966002077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 338966002078 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 338966002079 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 338966002080 TPP-binding site [chemical binding]; other site 338966002081 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 338966002082 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 338966002083 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 338966002084 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 338966002085 dimer interface [polypeptide binding]; other site 338966002086 PYR/PP interface [polypeptide binding]; other site 338966002087 TPP binding site [chemical binding]; other site 338966002088 substrate binding site [chemical binding]; other site 338966002089 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 338966002090 Aspartase; Region: Aspartase; cd01357 338966002091 active sites [active] 338966002092 tetramer interface [polypeptide binding]; other site 338966002093 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966002094 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966002095 ligand binding site [chemical binding]; other site 338966002096 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966002097 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 338966002098 dimer interface [polypeptide binding]; other site 338966002099 active site 338966002100 metal binding site [ion binding]; metal-binding site 338966002101 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 338966002102 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 338966002103 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 338966002104 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...; Region: CSP_CDS; cd04458 338966002105 DNA-binding site [nucleotide binding]; DNA binding site 338966002106 RNA-binding motif; other site 338966002107 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 338966002108 VacJ like lipoprotein; Region: VacJ; cl01073 338966002109 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 338966002110 mce related protein; Region: MCE; pfam02470 338966002111 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 338966002112 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 338966002113 Walker A/P-loop; other site 338966002114 ATP binding site [chemical binding]; other site 338966002115 Q-loop/lid; other site 338966002116 ABC transporter signature motif; other site 338966002117 Walker B; other site 338966002118 D-loop; other site 338966002119 H-loop/switch region; other site 338966002120 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 338966002121 Permease; Region: Permease; pfam02405 338966002122 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 338966002123 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 338966002124 ligand binding site; other site 338966002125 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; cl17173 338966002126 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 338966002127 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966002128 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 338966002129 RNA binding surface [nucleotide binding]; other site 338966002130 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966002131 active site 338966002132 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 338966002133 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 338966002134 inhibitor-cofactor binding pocket; inhibition site 338966002135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966002136 catalytic residue [active] 338966002137 Predicted GTPase [General function prediction only]; Region: COG2403 338966002138 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966002139 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 338966002140 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 338966002141 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 338966002142 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 338966002143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966002144 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 338966002145 Sporulation related domain; Region: SPOR; pfam05036 338966002146 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 338966002147 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 338966002148 Bacterial SH3 domain; Region: SH3_3; cl17532 338966002149 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966002150 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966002151 Probable Catalytic site; other site 338966002152 metal-binding site 338966002153 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 338966002154 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 338966002155 active site 338966002156 HIGH motif; other site 338966002157 dimer interface [polypeptide binding]; other site 338966002158 KMSKS motif; other site 338966002159 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966002160 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 338966002161 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966002162 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 338966002163 GAF domain; Region: GAF_3; pfam13492 338966002164 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 338966002165 Walker B motif; other site 338966002166 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966002167 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966002168 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 338966002169 Magnesium ion binding site [ion binding]; other site 338966002170 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966002171 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 338966002172 ParB-like nuclease domain; Region: ParB; smart00470 338966002173 hydrogenase 4 subunit D; Validated; Region: PRK06525 338966002174 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002175 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 338966002176 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002177 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 338966002178 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002179 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 338966002180 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966002181 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 338966002182 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 338966002183 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338966002184 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338966002185 NADH dehydrogenase; Region: NADHdh; cl00469 338966002186 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 338966002187 NADH-plastoquinone oxidoreductase subunit; Provisional; Region: PRK08348 338966002188 4Fe-4S binding domain; Region: Fer4; pfam00037 338966002189 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 338966002190 nickel binding site [ion binding]; other site 338966002191 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 338966002192 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 338966002193 ATP synthase subunit C; Region: ATP-synt_C; cl00466 338966002194 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 338966002195 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 338966002196 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 338966002197 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 338966002198 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 338966002199 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 338966002200 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 338966002201 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338966002202 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 338966002203 beta subunit interaction interface [polypeptide binding]; other site 338966002204 Walker A motif; other site 338966002205 ATP binding site [chemical binding]; other site 338966002206 Walker B motif; other site 338966002207 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966002208 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 338966002209 core domain interface [polypeptide binding]; other site 338966002210 delta subunit interface [polypeptide binding]; other site 338966002211 epsilon subunit interface [polypeptide binding]; other site 338966002212 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 338966002213 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338966002214 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 338966002215 alpha subunit interaction interface [polypeptide binding]; other site 338966002216 Walker A motif; other site 338966002217 ATP binding site [chemical binding]; other site 338966002218 Walker B motif; other site 338966002219 inhibitor binding site; inhibition site 338966002220 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966002221 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 338966002222 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 338966002223 gamma subunit interface [polypeptide binding]; other site 338966002224 epsilon subunit interface [polypeptide binding]; other site 338966002225 LBP interface [polypeptide binding]; other site 338966002226 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 338966002227 propionate/acetate kinase; Provisional; Region: PRK12379 338966002228 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 338966002229 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 338966002230 FeS/SAM binding site; other site 338966002231 K+ potassium transporter; Region: K_trans; pfam02705 338966002232 ydaO/yuaA element as predicted by Rfam (RF00379), score 54.64 338966002233 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 338966002234 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 338966002235 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 338966002236 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966002237 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 338966002238 FeS/SAM binding site; other site 338966002239 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 338966002240 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 338966002241 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 338966002242 putative active site [active] 338966002243 putative metal binding site [ion binding]; other site 338966002244 seryl-tRNA synthetase; Provisional; Region: PRK05431 338966002245 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 338966002246 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...; Region: SerRS_core; cd00770 338966002247 dimer interface [polypeptide binding]; other site 338966002248 active site 338966002249 motif 1; other site 338966002250 motif 2; other site 338966002251 motif 3; other site 338966002252 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 338966002253 SEC-C motif; Region: SEC-C; pfam02810 338966002254 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 338966002255 RNA binding surface [nucleotide binding]; other site 338966002256 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 338966002257 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 338966002258 substrate binding site [chemical binding]; other site 338966002259 active site 338966002260 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 338966002261 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 338966002262 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 338966002263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966002264 homodimer interface [polypeptide binding]; other site 338966002265 catalytic residue [active] 338966002266 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 338966002267 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 338966002268 substrate binding site [chemical binding]; other site 338966002269 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 338966002270 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 338966002271 substrate binding site [chemical binding]; other site 338966002272 ligand binding site [chemical binding]; other site 338966002273 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 338966002274 AIR carboxylase; Region: AIRC; smart01001 338966002275 hypothetical protein; Provisional; Region: PRK04194 338966002276 competence damage-inducible protein A; Provisional; Region: PRK00549 338966002277 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 338966002278 putative MPT binding site; other site 338966002279 Competence-damaged protein; Region: CinA; pfam02464 338966002280 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966002281 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338966002282 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 338966002283 NADH dehydrogenase subunit D; Validated; Region: PRK06075 338966002284 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 338966002285 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 338966002286 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 338966002287 putative dimer interface [polypeptide binding]; other site 338966002288 [2Fe-2S] cluster binding site [ion binding]; other site 338966002289 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966002290 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338966002291 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 338966002292 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 338966002293 catalytic loop [active] 338966002294 iron binding site [ion binding]; other site 338966002295 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338966002296 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 338966002297 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 338966002298 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 338966002299 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 338966002300 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966002301 4Fe-4S binding domain; Region: Fer4; pfam00037 338966002302 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 338966002303 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966002304 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966002305 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966002306 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002307 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966002308 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002309 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 338966002310 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966002311 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338966002312 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966002313 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338966002314 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338966002315 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 338966002316 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 338966002317 Uncharacterized conserved protein [Function unknown]; Region: COG4095 338966002318 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 338966002319 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 338966002320 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 338966002321 binding surface 338966002322 TPR motif; other site 338966002323 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 338966002324 binding surface 338966002325 TPR motif; other site 338966002326 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 338966002327 nucleotide binding site/active site [active] 338966002328 HIT family signature motif; other site 338966002329 catalytic residue [active] 338966002330 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 338966002331 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338966002332 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 338966002333 HDOD domain; Region: HDOD; pfam08668 338966002334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966002335 Zn2+ binding site [ion binding]; other site 338966002336 Mg2+ binding site [ion binding]; other site 338966002337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002338 metal binding site [ion binding]; metal-binding site 338966002339 active site 338966002340 I-site; other site 338966002341 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 338966002342 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 338966002343 dimerization interface [polypeptide binding]; other site 338966002344 active site 338966002345 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 338966002346 dimerization interface [polypeptide binding]; other site 338966002347 putative Zn2+ binding site [ion binding]; other site 338966002348 putative DNA binding site [nucleotide binding]; other site 338966002349 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 338966002350 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 338966002351 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 338966002352 pantothenate kinase; Reviewed; Region: PRK13321 338966002353 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 338966002354 elongation factor G; Reviewed; Region: PRK12740 338966002355 G1 box; other site 338966002356 GTP/Mg2+ binding site [chemical binding]; other site 338966002357 G2 box; other site 338966002358 Switch I region; other site 338966002359 G3 box; other site 338966002360 Switch II region; other site 338966002361 G4 box; other site 338966002362 G5 box; other site 338966002363 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 338966002364 seadornavirus VP2 protein; Region: seadorna_VP2; TIGR04236 338966002365 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 338966002366 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 338966002367 Sporulation related domain; Region: SPOR; pfam05036 338966002368 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338966002369 G1 box; other site 338966002370 GTP/Mg2+ binding site [chemical binding]; other site 338966002371 G2 box; other site 338966002372 Switch I region; other site 338966002373 G3 box; other site 338966002374 Switch II region; other site 338966002375 G4 box; other site 338966002376 G5 box; other site 338966002377 Phospholipid methyltransferase; Region: PEMT; cl17370 338966002378 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966002379 BON domain; Region: BON; pfam04972 338966002380 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 338966002381 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 338966002382 active site 338966002383 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 338966002384 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 338966002385 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338966002386 minor groove reading motif; other site 338966002387 helix-hairpin-helix signature motif; other site 338966002388 substrate binding pocket [chemical binding]; other site 338966002389 active site 338966002390 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966002391 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 338966002392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966002393 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 338966002394 DNA binding residues [nucleotide binding] 338966002395 elongation factor Tu; Reviewed; Region: PRK00049 338966002396 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338966002397 G1 box; other site 338966002398 GEF interaction site [polypeptide binding]; other site 338966002399 GTP/Mg2+ binding site [chemical binding]; other site 338966002400 Switch I region; other site 338966002401 G2 box; other site 338966002402 G3 box; other site 338966002403 Switch II region; other site 338966002404 G4 box; other site 338966002405 G5 box; other site 338966002406 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 338966002407 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 338966002408 Antibiotic Binding Site [chemical binding]; other site 338966002409 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 338966002410 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 338966002411 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 338966002412 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 338966002413 putative homodimer interface [polypeptide binding]; other site 338966002414 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 338966002415 heterodimer interface [polypeptide binding]; other site 338966002416 homodimer interface [polypeptide binding]; other site 338966002417 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 338966002418 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 338966002419 23S rRNA interface [nucleotide binding]; other site 338966002420 L7/L12 interface [polypeptide binding]; other site 338966002421 putative thiostrepton binding site; other site 338966002422 L25 interface [polypeptide binding]; other site 338966002423 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 338966002424 mRNA/rRNA interface [nucleotide binding]; other site 338966002425 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 338966002426 23S rRNA interface [nucleotide binding]; other site 338966002427 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 338966002428 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 338966002429 L11 interface [polypeptide binding]; other site 338966002430 putative EF-Tu interaction site [polypeptide binding]; other site 338966002431 putative EF-G interaction site [polypeptide binding]; other site 338966002432 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; cl17585 338966002433 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 338966002434 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 338966002435 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 338966002436 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 338966002437 RPB3 interaction site [polypeptide binding]; other site 338966002438 RPB1 interaction site [polypeptide binding]; other site 338966002439 RPB11 interaction site [polypeptide binding]; other site 338966002440 RPB10 interaction site [polypeptide binding]; other site 338966002441 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 338966002442 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 338966002443 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 338966002444 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 338966002445 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 338966002446 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 338966002447 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 338966002448 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 338966002449 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 338966002450 DNA binding site [nucleotide binding] 338966002451 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 338966002452 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 338966002453 S17 interaction site [polypeptide binding]; other site 338966002454 S8 interaction site; other site 338966002455 16S rRNA interaction site [nucleotide binding]; other site 338966002456 streptomycin interaction site [chemical binding]; other site 338966002457 23S rRNA interaction site [nucleotide binding]; other site 338966002458 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 338966002459 30S ribosomal protein S7; Validated; Region: PRK05302 338966002460 elongation factor G; Reviewed; Region: PRK00007 338966002461 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 338966002462 G1 box; other site 338966002463 putative GEF interaction site [polypeptide binding]; other site 338966002464 GTP/Mg2+ binding site [chemical binding]; other site 338966002465 Switch I region; other site 338966002466 G2 box; other site 338966002467 G3 box; other site 338966002468 Switch II region; other site 338966002469 G4 box; other site 338966002470 G5 box; other site 338966002471 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 338966002472 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 338966002473 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 338966002474 elongation factor Tu; Reviewed; Region: PRK00049 338966002475 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 338966002476 G1 box; other site 338966002477 GEF interaction site [polypeptide binding]; other site 338966002478 GTP/Mg2+ binding site [chemical binding]; other site 338966002479 Switch I region; other site 338966002480 G2 box; other site 338966002481 G3 box; other site 338966002482 Switch II region; other site 338966002483 G4 box; other site 338966002484 G5 box; other site 338966002485 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 338966002486 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 338966002487 Antibiotic Binding Site [chemical binding]; other site 338966002488 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 338966002489 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 338966002490 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 338966002491 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 338966002492 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 338966002493 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 338966002494 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 338966002495 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 338966002496 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 338966002497 protein-rRNA interface [nucleotide binding]; other site 338966002498 putative translocon binding site; other site 338966002499 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 338966002500 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 338966002501 G-X-X-G motif; other site 338966002502 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 338966002503 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 338966002504 23S rRNA interface [nucleotide binding]; other site 338966002505 5S rRNA interface [nucleotide binding]; other site 338966002506 putative antibiotic binding site [chemical binding]; other site 338966002507 L25 interface [polypeptide binding]; other site 338966002508 L27 interface [polypeptide binding]; other site 338966002509 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 338966002510 putative translocon interaction site; other site 338966002511 23S rRNA interface [nucleotide binding]; other site 338966002512 signal recognition particle (SRP54) interaction site; other site 338966002513 L23 interface [polypeptide binding]; other site 338966002514 trigger factor interaction site; other site 338966002515 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 338966002516 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 338966002517 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 338966002518 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 338966002519 RNA binding site [nucleotide binding]; other site 338966002520 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 338966002521 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 338966002522 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 338966002523 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 338966002524 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 338966002525 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 338966002526 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 338966002527 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 338966002528 5S rRNA interface [nucleotide binding]; other site 338966002529 23S rRNA interface [nucleotide binding]; other site 338966002530 L5 interface [polypeptide binding]; other site 338966002531 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 338966002532 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 338966002533 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 338966002534 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 338966002535 23S rRNA binding site [nucleotide binding]; other site 338966002536 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 338966002537 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 338966002538 SecY translocase; Region: SecY; pfam00344 338966002539 adenylate kinase; Reviewed; Region: adk; PRK00279 338966002540 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 338966002541 AMP-binding site [chemical binding]; other site 338966002542 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 338966002543 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 338966002544 active site 338966002545 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 338966002546 30S ribosomal protein S13; Region: bact_S13; TIGR03631 338966002547 30S ribosomal protein S11; Validated; Region: PRK05309 338966002548 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 338966002549 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 338966002550 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 338966002551 RNA binding surface [nucleotide binding]; other site 338966002552 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 338966002553 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 338966002554 alphaNTD homodimer interface [polypeptide binding]; other site 338966002555 alphaNTD - beta interaction site [polypeptide binding]; other site 338966002556 alphaNTD - beta' interaction site [polypeptide binding]; other site 338966002557 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 338966002558 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 338966002559 Protein of unknown function (DUF327); Region: DUF327; pfam03885 338966002560 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 338966002561 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 338966002562 dimerization interface [polypeptide binding]; other site 338966002563 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 338966002564 putative active site [active] 338966002565 heme pocket [chemical binding]; other site 338966002566 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 338966002567 dimer interface [polypeptide binding]; other site 338966002568 phosphorylation site [posttranslational modification] 338966002569 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 338966002570 ATP binding site [chemical binding]; other site 338966002571 Mg2+ binding site [ion binding]; other site 338966002572 G-X-G motif; other site 338966002573 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966002574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966002575 active site 338966002576 phosphorylation site [posttranslational modification] 338966002577 intermolecular recognition site; other site 338966002578 dimerization interface [polypeptide binding]; other site 338966002579 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 338966002580 Walker A motif; other site 338966002581 ATP binding site [chemical binding]; other site 338966002582 Walker B motif; other site 338966002583 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966002584 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 338966002585 active site 338966002586 ribulose/triose binding site [chemical binding]; other site 338966002587 phosphate binding site [ion binding]; other site 338966002588 substrate (anthranilate) binding pocket [chemical binding]; other site 338966002589 product (indole) binding pocket [chemical binding]; other site 338966002590 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 338966002591 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 338966002592 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 338966002593 Response regulator receiver domain; Region: Response_reg; pfam00072 338966002594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966002595 active site 338966002596 phosphorylation site [posttranslational modification] 338966002597 intermolecular recognition site; other site 338966002598 dimerization interface [polypeptide binding]; other site 338966002599 Beta-lactamase; Region: Beta-lactamase; pfam00144 338966002600 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 338966002601 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 338966002602 heterotetramer interface [polypeptide binding]; other site 338966002603 active site pocket [active] 338966002604 cleavage site 338966002605 PAS domain S-box; Region: sensory_box; TIGR00229 338966002606 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 338966002607 putative active site [active] 338966002608 heme pocket [chemical binding]; other site 338966002609 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966002610 GAF domain; Region: GAF; pfam01590 338966002611 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966002612 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 338966002613 putative active site [active] 338966002614 heme pocket [chemical binding]; other site 338966002615 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 338966002616 dimer interface [polypeptide binding]; other site 338966002617 phosphorylation site [posttranslational modification] 338966002618 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 338966002619 ATP binding site [chemical binding]; other site 338966002620 Mg2+ binding site [ion binding]; other site 338966002621 G-X-G motif; other site 338966002622 Response regulator receiver domain; Region: Response_reg; pfam00072 338966002623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966002624 active site 338966002625 phosphorylation site [posttranslational modification] 338966002626 intermolecular recognition site; other site 338966002627 dimerization interface [polypeptide binding]; other site 338966002628 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 338966002629 ATP binding site [chemical binding]; other site 338966002630 Mg2+ binding site [ion binding]; other site 338966002631 G-X-G motif; other site 338966002632 Dodecin; Region: Dodecin; pfam07311 338966002633 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 338966002634 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 338966002635 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 338966002636 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 338966002637 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 338966002638 dimerization interface [polypeptide binding]; other site 338966002639 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966002640 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 338966002641 PAS domain; Region: PAS_9; pfam13426 338966002642 putative active site [active] 338966002643 heme pocket [chemical binding]; other site 338966002644 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966002645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002646 metal binding site [ion binding]; metal-binding site 338966002647 active site 338966002648 I-site; other site 338966002649 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 338966002650 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966002651 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 338966002652 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966002653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966002654 dimer interface [polypeptide binding]; other site 338966002655 putative CheW interface [polypeptide binding]; other site 338966002656 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 338966002657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 338966002658 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 338966002659 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 338966002660 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 338966002661 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 338966002662 active site 338966002663 dimer interface [polypeptide binding]; other site 338966002664 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 338966002665 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 338966002666 active site 338966002667 FMN binding site [chemical binding]; other site 338966002668 substrate binding site [chemical binding]; other site 338966002669 3Fe-4S cluster binding site [ion binding]; other site 338966002670 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 338966002671 domain_subunit interface; other site 338966002672 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 338966002673 putative active site [active] 338966002674 Ap4A binding site [chemical binding]; other site 338966002675 nudix motif; other site 338966002676 putative metal binding site [ion binding]; other site 338966002677 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 338966002678 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 338966002679 Domain of unknown function DUF87; Region: DUF87; pfam01935 338966002680 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 338966002681 putative amphipathic alpha helix; other site 338966002682 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 338966002683 putative ligand binding site [chemical binding]; other site 338966002684 putative NAD binding site [chemical binding]; other site 338966002685 putative catalytic site [active] 338966002686 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 338966002687 L-serine binding site [chemical binding]; other site 338966002688 ACT domain interface; other site 338966002689 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 338966002690 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966002691 catalytic residue [active] 338966002692 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 338966002693 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 338966002694 putative active site; other site 338966002695 catalytic triad [active] 338966002696 putative dimer interface [polypeptide binding]; other site 338966002697 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 338966002698 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 338966002699 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 338966002700 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 338966002701 PAS domain S-box; Region: sensory_box; TIGR00229 338966002702 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 338966002703 putative active site [active] 338966002704 heme pocket [chemical binding]; other site 338966002705 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 338966002706 dimer interface [polypeptide binding]; other site 338966002707 phosphorylation site [posttranslational modification] 338966002708 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 338966002709 ATP binding site [chemical binding]; other site 338966002710 Mg2+ binding site [ion binding]; other site 338966002711 G-X-G motif; other site 338966002712 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 338966002713 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966002714 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 338966002715 FeS/SAM binding site; other site 338966002716 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966002717 HDOD domain; Region: HDOD; pfam08668 338966002718 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966002719 Zn2+ binding site [ion binding]; other site 338966002720 Mg2+ binding site [ion binding]; other site 338966002721 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 338966002722 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 338966002723 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966002724 active site 338966002725 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 338966002726 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 338966002727 5S rRNA interface [nucleotide binding]; other site 338966002728 CTC domain interface [polypeptide binding]; other site 338966002729 L16 interface [polypeptide binding]; other site 338966002730 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 338966002731 putative active site [active] 338966002732 catalytic residue [active] 338966002733 GTP-binding protein YchF; Reviewed; Region: PRK09601 338966002734 YchF GTPase; Region: YchF; cd01900 338966002735 G1 box; other site 338966002736 GTP/Mg2+ binding site [chemical binding]; other site 338966002737 Switch I region; other site 338966002738 G2 box; other site 338966002739 Switch II region; other site 338966002740 G3 box; other site 338966002741 G4 box; other site 338966002742 G5 box; other site 338966002743 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 338966002744 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 338966002745 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 338966002746 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 338966002747 serine O-acetyltransferase; Region: cysE; TIGR01172 338966002748 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 338966002749 trimer interface [polypeptide binding]; other site 338966002750 active site 338966002751 substrate binding site [chemical binding]; other site 338966002752 CoA binding site [chemical binding]; other site 338966002753 fumarate hydratase; Provisional; Region: PRK15389 338966002754 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 338966002755 Fumarase C-terminus; Region: Fumerase_C; pfam05683 338966002756 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 338966002757 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 338966002758 RNA binding site [nucleotide binding]; other site 338966002759 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 338966002760 RNA binding site [nucleotide binding]; other site 338966002761 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 338966002762 RNA binding site [nucleotide binding]; other site 338966002763 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 338966002764 RNA binding site [nucleotide binding]; other site 338966002765 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 338966002766 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 338966002767 Walker A motif; other site 338966002768 ATP binding site [chemical binding]; other site 338966002769 Walker B motif; other site 338966002770 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...; Region: CSP_CDS; cd04458 338966002771 DNA-binding site [nucleotide binding]; DNA binding site 338966002772 RNA-binding motif; other site 338966002773 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 338966002774 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 338966002775 DRTGG domain; Region: DRTGG; pfam07085 338966002776 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 338966002777 DHH family; Region: DHH; pfam01368 338966002778 DHHA2 domain; Region: DHHA2; pfam02833 338966002779 helicase 45; Provisional; Region: PTZ00424 338966002780 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 338966002781 ATP binding site [chemical binding]; other site 338966002782 Mg++ binding site [ion binding]; other site 338966002783 motif III; other site 338966002784 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 338966002785 nucleotide binding region [chemical binding]; other site 338966002786 ATP-binding site [chemical binding]; other site 338966002787 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 338966002788 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; cl17251 338966002789 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 338966002790 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 338966002791 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 338966002792 putative catalytic cysteine [active] 338966002793 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 338966002794 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 338966002795 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 338966002796 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 338966002797 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 338966002798 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 338966002799 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 338966002800 Domain of unknown function DUF21; Region: DUF21; pfam01595 338966002801 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 338966002802 Transporter associated domain; Region: CorC_HlyC; smart01091 338966002803 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966002804 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 338966002805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966002806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966002807 WHG domain; Region: WHG; pfam13305 338966002808 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 338966002809 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 338966002810 Active site cavity [active] 338966002811 catalytic acid [active] 338966002812 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966002813 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966002814 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966002815 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966002816 multidrug efflux protein; Reviewed; Region: PRK09579 338966002817 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 338966002818 putative ADP-binding pocket [chemical binding]; other site 338966002819 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966002820 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 338966002821 metal binding site 2 [ion binding]; metal-binding site 338966002822 putative DNA binding helix; other site 338966002823 metal binding site 1 [ion binding]; metal-binding site 338966002824 dimer interface [polypeptide binding]; other site 338966002825 structural Zn2+ binding site [ion binding]; other site 338966002826 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966002827 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966002828 G1 box; other site 338966002829 GTP/Mg2+ binding site [chemical binding]; other site 338966002830 Switch I region; other site 338966002831 G2 box; other site 338966002832 G3 box; other site 338966002833 Switch II region; other site 338966002834 G4 box; other site 338966002835 G5 box; other site 338966002836 Nucleoside recognition; Region: Gate; pfam07670 338966002837 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966002838 Nucleoside recognition; Region: Gate; pfam07670 338966002839 DNA polymerase II large subunit; Validated; Region: PRK04023 338966002840 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 338966002841 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 338966002842 FeoA domain; Region: FeoA; pfam04023 338966002843 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 338966002844 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 338966002845 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338966002846 4Fe-4S binding domain; Region: Fer4; pfam00037 338966002847 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 338966002848 putative FMN binding site [chemical binding]; other site 338966002849 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 338966002850 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 338966002851 active site 338966002852 FMN binding site [chemical binding]; other site 338966002853 substrate binding site [chemical binding]; other site 338966002854 putative catalytic residue [active] 338966002855 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 338966002856 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 338966002857 FeS/SAM binding site; other site 338966002858 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 338966002859 Predicted membrane protein [Function unknown]; Region: COG2119 338966002860 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338966002861 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 338966002862 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338966002863 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 338966002864 putative cation:proton antiport protein; Provisional; Region: PRK10669 338966002865 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 338966002866 TrkA-N domain; Region: TrkA_N; pfam02254 338966002867 TrkA-C domain; Region: TrkA_C; pfam02080 338966002868 Tim44-like domain; Region: Tim44; pfam04280 338966002869 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 338966002870 yybP-ykoY element as predicted by Rfam (RF00080), score 49.64 338966002871 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 338966002872 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 338966002873 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 338966002874 FeoA domain; Region: FeoA; pfam04023 338966002875 FeoA domain; Region: FeoA; pfam04023 338966002876 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 338966002877 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 338966002878 G1 box; other site 338966002879 GTP/Mg2+ binding site [chemical binding]; other site 338966002880 Switch I region; other site 338966002881 G2 box; other site 338966002882 G3 box; other site 338966002883 Switch II region; other site 338966002884 G4 box; other site 338966002885 G5 box; other site 338966002886 Nucleoside recognition; Region: Gate; pfam07670 338966002887 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 338966002888 Nucleoside recognition; Region: Gate; pfam07670 338966002889 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 338966002890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966002891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966002892 metal binding site [ion binding]; metal-binding site 338966002893 active site 338966002894 I-site; other site 338966002895 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338966002896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966002897 Zn2+ binding site [ion binding]; other site 338966002898 Mg2+ binding site [ion binding]; other site 338966002899 flavodoxin FldA; Validated; Region: PRK09267 338966002900 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 338966002901 S-adenosylmethionine binding site [chemical binding]; other site 338966002902 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 338966002903 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 338966002904 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 338966002905 hypothetical protein; Validated; Region: PRK00153 338966002906 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966002907 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 338966002908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 338966002909 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 338966002910 homotrimer interaction site [polypeptide binding]; other site 338966002911 putative active site [active] 338966002912 Imelysin; Region: Peptidase_M75; pfam09375 338966002913 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966002914 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966002915 Walker A motif; other site 338966002916 ATP binding site [chemical binding]; other site 338966002917 Walker B motif; other site 338966002918 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966002919 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966002920 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966002921 Walker A motif; other site 338966002922 ATP binding site [chemical binding]; other site 338966002923 Walker B motif; other site 338966002924 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966002925 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966002926 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966002927 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 338966002928 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966002929 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 338966002930 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966002931 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 338966002932 Walker A motif; other site 338966002933 ATP binding site [chemical binding]; other site 338966002934 Walker B motif; other site 338966002935 arginine finger; other site 338966002936 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338966002937 Protein of unknown function DUF58; Region: DUF58; pfam01882 338966002938 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 338966002939 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338966002940 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338966002941 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 338966002942 Iron permease FTR1 family; Region: FTR1; cl00475 338966002943 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966002944 Imelysin; Region: Peptidase_M75; pfam09375 338966002945 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966002946 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966002947 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...; Region: LT_GEWL; cd00254 338966002948 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966002949 catalytic residue [active] 338966002950 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 338966002951 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966002952 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 338966002953 ZIP Zinc transporter; Region: Zip; pfam02535 338966002954 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 338966002955 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 338966002956 DNA binding residues [nucleotide binding] 338966002957 dimer interface [polypeptide binding]; other site 338966002958 putative metal binding site [ion binding]; other site 338966002959 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966002960 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 338966002961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966002962 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 338966002963 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 338966002964 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 338966002965 camphor resistance protein CrcB; Provisional; Region: PRK14222 338966002966 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 338966002967 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 338966002968 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 338966002969 putative Cl- selectivity filter; other site 338966002970 putative pore gating glutamate residue; other site 338966002971 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 338966002972 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 338966002973 FeS/SAM binding site; other site 338966002974 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 338966002975 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 338966002976 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 338966002977 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 338966002978 arsenical-resistance protein; Region: acr3; TIGR00832 338966002979 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 338966002980 Low molecular weight phosphatase family; Region: LMWPc; cd00115 338966002981 active site 338966002982 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 338966002983 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 338966002984 putative substrate translocation pore; other site 338966002985 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 338966002986 core domain interface [polypeptide binding]; other site 338966002987 delta subunit interface [polypeptide binding]; other site 338966002988 epsilon subunit interface [polypeptide binding]; other site 338966002989 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 338966002990 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966002991 Walker A motif; other site 338966002992 ATP binding site [chemical binding]; other site 338966002993 Walker B motif; other site 338966002994 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 338966002995 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 338966002996 ATP synthase subunit C; Region: ATP-synt_C; cl00466 338966002997 F0F1 ATP synthase subunit A; Provisional; Region: PRK13420 338966002998 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 338966002999 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 338966003000 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 338966003001 epsilon subunit interface [polypeptide binding]; other site 338966003002 LBP interface [polypeptide binding]; other site 338966003003 gamma subunit interface [polypeptide binding]; other site 338966003004 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 338966003005 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338966003006 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 338966003007 alpha subunit interaction interface [polypeptide binding]; other site 338966003008 Walker A motif; other site 338966003009 ATP binding site [chemical binding]; other site 338966003010 Walker B motif; other site 338966003011 inhibitor binding site; inhibition site 338966003012 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966003013 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966003014 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 338966003015 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 338966003016 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 338966003017 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 338966003018 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 338966003019 catalytic residues [active] 338966003020 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 338966003021 Predicted permeases [General function prediction only]; Region: COG0701 338966003022 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 338966003023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338966003024 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 338966003025 putative substrate translocation pore; other site 338966003026 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966003027 MarR family; Region: MarR_2; pfam12802 338966003028 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003029 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003030 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003031 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 338966003032 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 338966003033 dimerization interface [polypeptide binding]; other site 338966003034 putative DNA binding site [nucleotide binding]; other site 338966003035 putative Zn2+ binding site [ion binding]; other site 338966003036 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966003037 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 338966003038 S-adenosylmethionine binding site [chemical binding]; other site 338966003039 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 338966003040 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 338966003041 XdhC Rossmann domain; Region: XdhC_C; pfam13478 338966003042 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 338966003043 nudix motif; other site 338966003044 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 338966003045 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 338966003046 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 338966003047 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 338966003048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003049 homodimer interface [polypeptide binding]; other site 338966003050 catalytic residue [active] 338966003051 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 338966003052 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 338966003053 active site 338966003054 SAM binding site [chemical binding]; other site 338966003055 homodimer interface [polypeptide binding]; other site 338966003056 cobyric acid synthase; Provisional; Region: PRK00784 338966003057 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 338966003058 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 338966003059 catalytic triad [active] 338966003060 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966003061 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...; Region: LT_GEWL; cd00254 338966003062 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966003063 catalytic residue [active] 338966003064 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966003065 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 338966003066 Walker B motif; other site 338966003067 arginine finger; other site 338966003068 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966003069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003070 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003071 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003072 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 338966003074 active site 338966003075 intermolecular recognition site; other site 338966003076 dimerization interface [polypeptide binding]; other site 338966003077 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 338966003078 Walker A motif; other site 338966003079 ATP binding site [chemical binding]; other site 338966003080 Walker B motif; other site 338966003081 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 338966003082 putative CheA interaction surface; other site 338966003083 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 338966003084 putative binding surface; other site 338966003085 active site 338966003086 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966003087 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966003088 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 338966003089 ATP binding site [chemical binding]; other site 338966003090 Mg2+ binding site [ion binding]; other site 338966003091 G-X-G motif; other site 338966003092 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 338966003093 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966003094 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 338966003095 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338966003096 HDOD domain; Region: HDOD; pfam08668 338966003097 HD domain; Region: HD; pfam01966 338966003098 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338966003099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003100 active site 338966003101 phosphorylation site [posttranslational modification] 338966003102 intermolecular recognition site; other site 338966003103 dimerization interface [polypeptide binding]; other site 338966003104 CheB methylesterase; Region: CheB_methylest; pfam01339 338966003105 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 338966003106 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 338966003107 G1 box; other site 338966003108 putative GEF interaction site [polypeptide binding]; other site 338966003109 GTP/Mg2+ binding site [chemical binding]; other site 338966003110 Switch I region; other site 338966003111 G2 box; other site 338966003112 G3 box; other site 338966003113 Switch II region; other site 338966003114 G4 box; other site 338966003115 G5 box; other site 338966003116 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 338966003117 Predicted membrane protein [Function unknown]; Region: COG2259 338966003118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966003119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966003120 metal binding site [ion binding]; metal-binding site 338966003121 active site 338966003122 I-site; other site 338966003123 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966003124 Bacterial transcriptional regulator; Region: IclR; pfam01614 338966003125 PAS domain; Region: PAS; smart00091 338966003126 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 338966003127 Walker A motif; other site 338966003128 ATP binding site [chemical binding]; other site 338966003129 Walker B motif; other site 338966003130 arginine finger; other site 338966003131 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966003132 competence damage-inducible protein A; Provisional; Region: PRK01215 338966003133 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 338966003134 putative MPT binding site; other site 338966003135 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966003136 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 338966003137 dimer interface [polypeptide binding]; other site 338966003138 active site 338966003139 metal binding site [ion binding]; metal-binding site 338966003140 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 338966003141 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 338966003142 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 338966003143 Ubiquitin-like proteins; Region: UBQ; cl00155 338966003144 charged pocket; other site 338966003145 hydrophobic patch; other site 338966003146 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 338966003147 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 338966003148 ATP binding site [chemical binding]; other site 338966003149 substrate interface [chemical binding]; other site 338966003150 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 338966003151 dimer interface [polypeptide binding]; other site 338966003152 conserved gate region; other site 338966003153 putative PBP binding loops; other site 338966003154 ABC-ATPase subunit interface; other site 338966003155 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 338966003156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966003157 Walker A/P-loop; other site 338966003158 ATP binding site [chemical binding]; other site 338966003159 Q-loop/lid; other site 338966003160 ABC transporter signature motif; other site 338966003161 Walker B; other site 338966003162 D-loop; other site 338966003163 H-loop/switch region; other site 338966003164 TOBE domain; Region: TOBE; cl01440 338966003165 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 338966003166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003167 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003168 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003169 Short C-terminal domain; Region: SHOCT; pfam09851 338966003170 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 338966003171 putative catalytic site [active] 338966003172 putative metal binding site [ion binding]; other site 338966003173 putative phosphate binding site [ion binding]; other site 338966003174 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 338966003175 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003177 active site 338966003178 phosphorylation site [posttranslational modification] 338966003179 intermolecular recognition site; other site 338966003180 dimerization interface [polypeptide binding]; other site 338966003181 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966003182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966003183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966003184 metal binding site [ion binding]; metal-binding site 338966003185 active site 338966003186 I-site; other site 338966003187 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 338966003188 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 338966003189 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 338966003190 dimerization interface [polypeptide binding]; other site 338966003191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966003192 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 338966003193 dimer interface [polypeptide binding]; other site 338966003194 phosphorylation site [posttranslational modification] 338966003195 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 338966003196 ATP binding site [chemical binding]; other site 338966003197 Mg2+ binding site [ion binding]; other site 338966003198 G-X-G motif; other site 338966003199 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003201 active site 338966003202 phosphorylation site [posttranslational modification] 338966003203 intermolecular recognition site; other site 338966003204 dimerization interface [polypeptide binding]; other site 338966003205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003206 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003207 active site 338966003208 phosphorylation site [posttranslational modification] 338966003209 intermolecular recognition site; other site 338966003210 dimerization interface [polypeptide binding]; other site 338966003211 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 338966003212 putative binding surface; other site 338966003213 active site 338966003214 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 338966003215 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966003216 putative active site [active] 338966003217 heme pocket [chemical binding]; other site 338966003218 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 338966003219 putative active site [active] 338966003220 heme pocket [chemical binding]; other site 338966003221 PAS domain S-box; Region: sensory_box; TIGR00229 338966003222 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 338966003223 putative active site [active] 338966003224 heme pocket [chemical binding]; other site 338966003225 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966003226 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 338966003227 dimer interface [polypeptide binding]; other site 338966003228 phosphorylation site [posttranslational modification] 338966003229 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 338966003230 ATP binding site [chemical binding]; other site 338966003231 Mg2+ binding site [ion binding]; other site 338966003232 G-X-G motif; other site 338966003233 Response regulator receiver domain; Region: Response_reg; pfam00072 338966003234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003235 active site 338966003236 phosphorylation site [posttranslational modification] 338966003237 intermolecular recognition site; other site 338966003238 dimerization interface [polypeptide binding]; other site 338966003239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338966003240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966003241 NAD(P) binding site [chemical binding]; other site 338966003242 active site 338966003243 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 338966003244 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 338966003245 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 338966003246 dimer interface [polypeptide binding]; other site 338966003247 active site 338966003248 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003249 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 338966003250 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966003251 putative acyl-acceptor binding pocket; other site 338966003252 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966003253 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338966003254 acyl-activating enzyme (AAE) consensus motif; other site 338966003255 AMP binding site [chemical binding]; other site 338966003256 active site 338966003257 CoA binding site [chemical binding]; other site 338966003258 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 338966003259 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 338966003260 FeS/SAM binding site; other site 338966003261 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 338966003262 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 338966003263 active site 2 [active] 338966003264 active site 1 [active] 338966003265 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 338966003266 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 338966003267 Predicted exporter [General function prediction only]; Region: COG4258 338966003268 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 338966003269 active site 2 [active] 338966003270 active site 1 [active] 338966003271 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 338966003272 active site 338966003273 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 338966003274 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 338966003275 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966003276 active site 338966003277 B12 binding domain; Region: B12-binding; pfam02310 338966003278 B12 binding site [chemical binding]; other site 338966003279 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966003280 lipid biosynthesis B12-binding/radical SAM protein; Region: rSAM_ladder_B12; TIGR04072 338966003281 B12 binding site [chemical binding]; other site 338966003282 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966003283 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 338966003284 FeS/SAM binding site; other site 338966003285 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 338966003286 Ligand binding site; other site 338966003287 Putative Catalytic site; other site 338966003288 DXD motif; other site 338966003289 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 338966003290 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338966003291 putative acyl-acceptor binding pocket; other site 338966003292 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003293 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 338966003294 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; Region: CE4_DAC_u1_6s; cd10970 338966003295 putative active site [active] 338966003296 putative metal binding site [ion binding]; other site 338966003297 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966003298 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 338966003299 dimer interface [polypeptide binding]; other site 338966003300 active site 338966003301 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966003302 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 338966003303 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966003304 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 338966003305 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966003306 catalytic residue [active] 338966003307 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 338966003308 SnoaL-like domain; Region: SnoaL_2; pfam12680 338966003309 FOG: WD40 repeat [General function prediction only]; Region: COG2319 338966003310 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 338966003311 structural tetrad; other site 338966003312 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 338966003313 Integrase core domain; Region: rve; pfam00665 338966003314 AAA domain; Region: AAA_22; pfam13401 338966003315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 338966003316 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003317 active site 338966003318 5'-3' exonuclease; Region: 53EXOc; smart00475 338966003319 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338966003320 active site 338966003321 metal binding site 1 [ion binding]; metal-binding site 338966003322 putative 5' ssDNA interaction site; other site 338966003323 metal binding site 3; metal-binding site 338966003324 metal binding site 2 [ion binding]; metal-binding site 338966003325 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338966003326 putative DNA binding site [nucleotide binding]; other site 338966003327 putative metal binding site [ion binding]; other site 338966003328 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 338966003329 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966003330 active site 338966003331 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 338966003332 YceI-like domain; Region: YceI; smart00867 338966003333 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 338966003334 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 338966003335 SIR2 family 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-fam; cd01407 338966003336 NAD+ binding site [chemical binding]; other site 338966003337 substrate binding site [chemical binding]; other site 338966003338 Zn binding site [ion binding]; other site 338966003339 aspartate aminotransferase; Provisional; Region: PRK05764 338966003340 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 338966003341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003342 homodimer interface [polypeptide binding]; other site 338966003343 catalytic residue [active] 338966003344 ribosome maturation protein RimP; Reviewed; Region: PRK00092 338966003345 Sm and related proteins; Region: Sm_like; cl00259 338966003346 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 338966003347 putative oligomer interface [polypeptide binding]; other site 338966003348 putative RNA binding site [nucleotide binding]; other site 338966003349 NusA N-terminal domain; Region: NusA_N; pfam08529 338966003350 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 338966003351 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 338966003352 RNA binding site [nucleotide binding]; other site 338966003353 homodimer interface [polypeptide binding]; other site 338966003354 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 338966003355 G-X-X-G motif; other site 338966003356 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 338966003357 G-X-X-G motif; other site 338966003358 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 338966003359 putative RNA binding cleft [nucleotide binding]; other site 338966003360 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 338966003361 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338966003362 translation initiation factor IF-2; Region: IF-2; TIGR00487 338966003363 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 338966003364 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 338966003365 G1 box; other site 338966003366 putative GEF interaction site [polypeptide binding]; other site 338966003367 GTP/Mg2+ binding site [chemical binding]; other site 338966003368 Switch I region; other site 338966003369 G2 box; other site 338966003370 G3 box; other site 338966003371 Switch II region; other site 338966003372 G4 box; other site 338966003373 G5 box; other site 338966003374 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 338966003375 Translation-initiation factor 2; Region: IF-2; pfam11987 338966003376 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 338966003377 ribosome-binding factor A; Provisional; Region: PRK13815 338966003378 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 338966003379 DHH family; Region: DHH; pfam01368 338966003380 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 338966003381 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 338966003382 RNA binding site [nucleotide binding]; other site 338966003383 active site 338966003384 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 338966003385 16S/18S rRNA binding site [nucleotide binding]; other site 338966003386 S13e-L30e interaction site [polypeptide binding]; other site 338966003387 25S rRNA binding site [nucleotide binding]; other site 338966003388 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 338966003389 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 338966003390 RNase E interface [polypeptide binding]; other site 338966003391 trimer interface [polypeptide binding]; other site 338966003392 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 338966003393 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 338966003394 RNase E interface [polypeptide binding]; other site 338966003395 trimer interface [polypeptide binding]; other site 338966003396 active site 338966003397 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 338966003398 putative nucleic acid binding region [nucleotide binding]; other site 338966003399 G-X-X-G motif; other site 338966003400 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 338966003401 RNA binding site [nucleotide binding]; other site 338966003402 domain interface; other site 338966003403 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 338966003404 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 338966003405 putative active site [active] 338966003406 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 338966003407 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 338966003408 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 338966003409 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 338966003410 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 338966003411 OstA-like protein; Region: OstA; pfam03968 338966003412 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 338966003413 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 338966003414 Walker A/P-loop; other site 338966003415 ATP binding site [chemical binding]; other site 338966003416 Q-loop/lid; other site 338966003417 ABC transporter signature motif; other site 338966003418 Walker B; other site 338966003419 D-loop; other site 338966003420 H-loop/switch region; other site 338966003421 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 338966003422 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 338966003423 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 338966003424 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 338966003425 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...; Region: RaiA; cd00552 338966003426 30S subunit binding site; other site 338966003427 HPr kinase/phosphorylase; Provisional; Region: PRK05428 338966003428 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 338966003429 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 338966003430 Hpr binding site; other site 338966003431 active site 338966003432 homohexamer subunit interaction site [polypeptide binding]; other site 338966003433 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 338966003434 shikimate kinase; Reviewed; Region: aroK; PRK00131 338966003435 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 338966003436 active pocket/dimerization site; other site 338966003437 active site 338966003438 phosphorylation site [posttranslational modification] 338966003439 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 338966003440 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 338966003441 NodB motif; other site 338966003442 putative active site [active] 338966003443 putative catalytic site [active] 338966003444 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 338966003445 dimerization domain swap beta strand [polypeptide binding]; other site 338966003446 regulatory protein interface [polypeptide binding]; other site 338966003447 active site 338966003448 regulatory phosphorylation site [posttranslational modification]; other site 338966003449 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 338966003450 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 338966003451 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338966003452 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338966003453 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 338966003454 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 338966003455 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 338966003456 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966003457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003458 active site 338966003459 phosphorylation site [posttranslational modification] 338966003460 intermolecular recognition site; other site 338966003461 dimerization interface [polypeptide binding]; other site 338966003462 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 338966003463 Walker A motif; other site 338966003464 ATP binding site [chemical binding]; other site 338966003465 Walker B motif; other site 338966003466 arginine finger; other site 338966003467 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966003468 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 338966003469 dimerization domain [polypeptide binding]; other site 338966003470 dimer interface [polypeptide binding]; other site 338966003471 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 338966003472 catalytic residues [active] 338966003473 Bacterial Ig-like domain; Region: Big_5; pfam13205 338966003474 Bacterial Ig-like domain; Region: Big_5; pfam13205 338966003475 Bacterial Ig-like domain; Region: Big_5; pfam13205 338966003476 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 338966003477 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 338966003478 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 338966003479 catalytic residues [active] 338966003480 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 338966003481 Competence protein A; Region: Competence_A; pfam11104 338966003482 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 338966003483 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 338966003484 Pilus assembly protein, PilO; Region: PilO; pfam04350 338966003485 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 338966003486 Pilus assembly protein, PilP; Region: PilP; pfam04351 338966003487 AMIN domain; Region: AMIN; pfam11741 338966003488 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 338966003489 Secretin and TonB N terminus short domain; Region: STN; smart00965 338966003490 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 338966003491 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966003492 PilZ domain; Region: PilZ; pfam07238 338966003493 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 338966003494 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 338966003495 catalytic residues [active] 338966003496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 338966003497 WYL domain; Region: WYL; pfam13280 338966003498 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 338966003499 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 338966003500 putative active site [active] 338966003501 putative NTP binding site [chemical binding]; other site 338966003502 putative nucleic acid binding site [nucleotide binding]; other site 338966003503 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 338966003504 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 338966003505 active site 338966003506 Nuclease-related domain; Region: NERD; pfam08378 338966003507 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 338966003508 nucleotide binding site/active site [active] 338966003509 HIT family signature motif; other site 338966003510 catalytic residue [active] 338966003511 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 338966003512 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 338966003513 active site 338966003514 transposase/IS protein; Provisional; Region: PRK09183 338966003515 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 338966003516 Walker A motif; other site 338966003517 ATP binding site [chemical binding]; other site 338966003518 Walker B motif; other site 338966003519 arginine finger; other site 338966003520 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 338966003521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966003522 Integrase core domain; Region: rve; pfam00665 338966003523 Virulence protein [General function prediction only]; Region: COG3943 338966003524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003525 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003526 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003527 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 338966003528 active site 338966003529 DNA binding site [nucleotide binding] 338966003530 Int/Topo IB signature motif; other site 338966003531 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 338966003532 active site 338966003533 catalytic residues [active] 338966003534 DNA binding site [nucleotide binding] 338966003535 Int/Topo IB signature motif; other site 338966003536 Sporulation related domain; Region: SPOR; pfam05036 338966003537 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 338966003538 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 338966003539 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 338966003540 active site 338966003541 HIGH motif; other site 338966003542 KMSK motif region; other site 338966003543 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 338966003544 tRNA binding surface [nucleotide binding]; other site 338966003545 anticodon binding site; other site 338966003546 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 338966003547 Septum formation initiator; Region: DivIC; pfam04977 338966003548 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 338966003549 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 338966003550 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966003551 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 338966003552 Predicted methyltransferases [General function prediction only]; Region: COG0313 338966003553 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 338966003554 putative SAM binding site [chemical binding]; other site 338966003555 putative homodimer interface [polypeptide binding]; other site 338966003556 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 338966003557 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 338966003558 tetramer interface [polypeptide binding]; other site 338966003559 TPP-binding site [chemical binding]; other site 338966003560 heterodimer interface [polypeptide binding]; other site 338966003561 phosphorylation loop region [posttranslational modification] 338966003562 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338966003563 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 338966003564 alpha subunit interface [polypeptide binding]; other site 338966003565 TPP binding site [chemical binding]; other site 338966003566 heterodimer interface [polypeptide binding]; other site 338966003567 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966003568 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 338966003569 E3 interaction surface; other site 338966003570 lipoyl attachment site [posttranslational modification]; other site 338966003571 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 338966003572 E3 interaction surface; other site 338966003573 lipoyl attachment site [posttranslational modification]; other site 338966003574 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 338966003575 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 338966003576 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 338966003577 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 338966003578 tetramer interface [polypeptide binding]; other site 338966003579 TPP-binding site [chemical binding]; other site 338966003580 heterodimer interface [polypeptide binding]; other site 338966003581 phosphorylation loop region [posttranslational modification] 338966003582 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 338966003583 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 338966003584 alpha subunit interface [polypeptide binding]; other site 338966003585 TPP binding site [chemical binding]; other site 338966003586 heterodimer interface [polypeptide binding]; other site 338966003587 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966003588 lipoyl synthase; Provisional; Region: PRK05481 338966003589 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 338966003590 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966003591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966003592 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 338966003593 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 338966003594 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 338966003595 ThiC-associated domain; Region: ThiC-associated; pfam13667 338966003596 ThiC family; Region: ThiC; pfam01964 338966003597 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 338966003598 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 338966003599 PGAP1-like protein; Region: PGAP1; pfam07819 338966003600 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 338966003601 ATP-NAD kinase; Region: NAD_kinase; pfam01513 338966003602 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966003603 GAF domain; Region: GAF; pfam01590 338966003604 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 338966003605 Walker A motif; other site 338966003606 ATP binding site [chemical binding]; other site 338966003607 Walker B motif; other site 338966003608 arginine finger; other site 338966003609 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966003610 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966003611 dimer interface [polypeptide binding]; other site 338966003612 metal binding site [ion binding]; metal-binding site 338966003613 substrate binding site [chemical binding]; other site 338966003614 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 338966003615 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 338966003616 putative NAD(P) binding site [chemical binding]; other site 338966003617 catalytic Zn binding site [ion binding]; other site 338966003618 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 338966003619 aspartate aminotransferase; Provisional; Region: PRK06836 338966003620 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 338966003621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966003622 homodimer interface [polypeptide binding]; other site 338966003623 catalytic residue [active] 338966003624 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 338966003625 active site 338966003626 metal binding site [ion binding]; metal-binding site 338966003627 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 338966003628 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 338966003629 Ligand Binding Site [chemical binding]; other site 338966003630 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 338966003631 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 338966003632 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966003633 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 338966003634 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 338966003635 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338966003636 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338966003637 Predicted transcriptional regulators [Transcription]; Region: COG1733 338966003638 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 338966003639 dimerization interface [polypeptide binding]; other site 338966003640 putative DNA binding site [nucleotide binding]; other site 338966003641 putative Zn2+ binding site [ion binding]; other site 338966003642 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 338966003643 active site 1 [active] 338966003644 dimer interface [polypeptide binding]; other site 338966003645 hexamer interface [polypeptide binding]; other site 338966003646 active site 2 [active] 338966003647 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 338966003648 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 338966003649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966003650 Walker A/P-loop; other site 338966003651 ATP binding site [chemical binding]; other site 338966003652 Q-loop/lid; other site 338966003653 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966003654 ABC transporter; Region: ABC_tran_2; pfam12848 338966003655 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966003656 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966003657 diiron binding motif [ion binding]; other site 338966003658 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 338966003659 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966003660 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966003661 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 338966003662 Walker A motif; other site 338966003663 ATP binding site [chemical binding]; other site 338966003664 Walker B motif; other site 338966003665 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 338966003666 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 338966003667 AMIN domain; Region: AMIN; pfam11741 338966003668 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 338966003669 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 338966003670 active site 338966003671 metal binding site [ion binding]; metal-binding site 338966003672 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 338966003673 MutS domain I; Region: MutS_I; pfam01624 338966003674 MutS domain II; Region: MutS_II; pfam05188 338966003675 MutS domain III; Region: MutS_III; pfam05192 338966003676 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 338966003677 Walker A/P-loop; other site 338966003678 ATP binding site [chemical binding]; other site 338966003679 Q-loop/lid; other site 338966003680 ABC transporter signature motif; other site 338966003681 Walker B; other site 338966003682 D-loop; other site 338966003683 H-loop/switch region; other site 338966003684 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966003685 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 338966003686 S-adenosylmethionine binding site [chemical binding]; other site 338966003687 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 338966003688 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 338966003689 catalytic residues [active] 338966003690 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966003691 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 338966003692 ADP-ribose binding site [chemical binding]; other site 338966003693 5'-nucleotidase; Provisional; Region: PRK03826 338966003694 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 338966003695 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 338966003696 Ligand Binding Site [chemical binding]; other site 338966003697 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 338966003698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966003699 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 338966003700 Walker A/P-loop; other site 338966003701 ATP binding site [chemical binding]; other site 338966003702 Q-loop/lid; other site 338966003703 ABC transporter signature motif; other site 338966003704 Walker B; other site 338966003705 D-loop; other site 338966003706 H-loop/switch region; other site 338966003707 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 338966003708 active site 338966003709 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966003710 MarR family; Region: MarR; pfam01047 338966003711 TPR repeat; Region: TPR_11; pfam13414 338966003712 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 338966003713 binding surface 338966003714 TPR motif; other site 338966003715 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966003716 TPR repeat; Region: TPR_11; pfam13414 338966003717 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 338966003718 TPR motif; other site 338966003719 binding surface 338966003720 TPR repeat; Region: TPR_11; pfam13414 338966003721 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 338966003722 TPR motif; other site 338966003723 binding surface 338966003724 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 338966003725 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 338966003726 FeS/SAM binding site; other site 338966003727 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 338966003728 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 338966003729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966003730 Coenzyme A binding pocket [chemical binding]; other site 338966003731 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 338966003732 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 338966003733 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 338966003734 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 338966003735 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 338966003736 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 338966003737 trimer interface [polypeptide binding]; other site 338966003738 putative Zn binding site [ion binding]; other site 338966003739 citrate lyase subunit gamma; Provisional; Region: PRK13253 338966003740 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 338966003741 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966003742 active site 338966003743 nucleotide binding site [chemical binding]; other site 338966003744 HIGH motif; other site 338966003745 KMSKS motif; other site 338966003746 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 338966003747 FAD binding site [chemical binding]; other site 338966003748 YceG-like family; Region: YceG; pfam02618 338966003749 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 338966003750 dimerization interface [polypeptide binding]; other site 338966003751 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 338966003752 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 338966003753 putative active site [active] 338966003754 putative metal binding site [ion binding]; other site 338966003755 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 338966003756 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966003757 active site 338966003758 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 338966003759 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 338966003760 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 338966003761 RimM N-terminal domain; Region: RimM; pfam01782 338966003762 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 338966003763 PRC-barrel domain; Region: PRC; pfam05239 338966003764 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 338966003765 KH domain; Region: KH_4; pfam13083 338966003766 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 338966003767 signal recognition particle protein; Provisional; Region: PRK10867 338966003768 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 338966003769 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 338966003770 P loop; other site 338966003771 GTP binding site [chemical binding]; other site 338966003772 Signal peptide binding domain; Region: SRP_SPB; pfam02978 338966003773 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 338966003774 Protein of unknown function (DUF721); Region: DUF721; pfam05258 338966003775 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 338966003776 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 338966003777 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 338966003778 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 338966003779 FMN binding site [chemical binding]; other site 338966003780 active site 338966003781 substrate binding site [chemical binding]; other site 338966003782 catalytic residue [active] 338966003783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003785 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003787 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003788 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003789 Predicted transcriptional regulators [Transcription]; Region: COG1733 338966003790 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 338966003791 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 338966003792 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338966003793 NADP binding site [chemical binding]; other site 338966003794 dimer interface [polypeptide binding]; other site 338966003795 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 338966003796 non-specific DNA binding site [nucleotide binding]; other site 338966003797 salt bridge; other site 338966003798 sequence-specific DNA binding site [nucleotide binding]; other site 338966003799 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 338966003800 Predicted transcriptional regulator [Transcription]; Region: COG3905 338966003801 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 338966003802 non-specific DNA binding site [nucleotide binding]; other site 338966003803 salt bridge; other site 338966003804 sequence-specific DNA binding site [nucleotide binding]; other site 338966003805 Prophage antirepressor [Transcription]; Region: COG3617 338966003806 BRO family, N-terminal domain; Region: Bro-N; smart01040 338966003807 Helix-turn-helix domain; Region: HTH_17; pfam12728 338966003808 CHC2 zinc finger; Region: zf-CHC2; cl17510 338966003809 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 338966003810 active site 338966003811 metal binding site [ion binding]; metal-binding site 338966003812 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 338966003813 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966003814 catalytic residues [active] 338966003815 catalytic nucleophile [active] 338966003816 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966003817 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966003818 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966003819 Synaptic Site I dimer interface [polypeptide binding]; other site 338966003820 DNA binding site [nucleotide binding] 338966003821 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 338966003822 DNA-binding interface [nucleotide binding]; DNA binding site 338966003823 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 338966003824 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 338966003825 active site 338966003826 DNA binding site [nucleotide binding] 338966003827 Int/Topo IB signature motif; other site 338966003828 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966003829 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 338966003830 binding surface 338966003831 TPR motif; other site 338966003832 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966003833 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966003834 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966003835 Caspase domain; Region: Peptidase_C14; pfam00656 338966003836 AAA ATPase domain; Region: AAA_16; pfam13191 338966003837 PGAP1-like protein; Region: PGAP1; pfam07819 338966003838 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 338966003839 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 338966003840 non-heme iron binding site [ion binding]; other site 338966003841 dimer interface [polypeptide binding]; other site 338966003842 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 338966003843 non-heme iron binding site [ion binding]; other site 338966003844 dimer interface [polypeptide binding]; other site 338966003845 type I citrate synthase; Reviewed; Region: PRK09569 338966003846 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 338966003847 oxalacetate binding site [chemical binding]; other site 338966003848 citrylCoA binding site [chemical binding]; other site 338966003849 coenzyme A binding site [chemical binding]; other site 338966003850 catalytic triad [active] 338966003851 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 338966003852 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 338966003853 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 338966003854 active site 338966003855 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 338966003856 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 338966003857 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 338966003858 CoenzymeA binding site [chemical binding]; other site 338966003859 subunit interaction site [polypeptide binding]; other site 338966003860 PHB binding site; other site 338966003861 PAS domain; Region: PAS_8; pfam13188 338966003862 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966003863 putative active site [active] 338966003864 heme pocket [chemical binding]; other site 338966003865 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 338966003866 putative active site [active] 338966003867 heme pocket [chemical binding]; other site 338966003868 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966003869 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 338966003870 putative active site [active] 338966003871 heme pocket [chemical binding]; other site 338966003872 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 338966003873 dimer interface [polypeptide binding]; other site 338966003874 phosphorylation site [posttranslational modification] 338966003875 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 338966003876 ATP binding site [chemical binding]; other site 338966003877 Mg2+ binding site [ion binding]; other site 338966003878 G-X-G motif; other site 338966003879 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966003880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003881 active site 338966003882 phosphorylation site [posttranslational modification] 338966003883 intermolecular recognition site; other site 338966003884 dimerization interface [polypeptide binding]; other site 338966003885 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 338966003886 dimerization interface [polypeptide binding]; other site 338966003887 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966003888 PAS domain; Region: PAS; smart00091 338966003889 putative active site [active] 338966003890 heme pocket [chemical binding]; other site 338966003891 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 338966003892 PAS domain; Region: PAS_9; pfam13426 338966003893 putative active site [active] 338966003894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966003895 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 338966003896 dimer interface [polypeptide binding]; other site 338966003897 phosphorylation site [posttranslational modification] 338966003898 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 338966003899 ATP binding site [chemical binding]; other site 338966003900 Mg2+ binding site [ion binding]; other site 338966003901 G-X-G motif; other site 338966003902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966003903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966003904 active site 338966003905 phosphorylation site [posttranslational modification] 338966003906 intermolecular recognition site; other site 338966003907 dimerization interface [polypeptide binding]; other site 338966003908 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 338966003909 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 338966003910 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 338966003911 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 338966003912 active site 338966003913 Int/Topo IB signature motif; other site 338966003914 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 338966003915 adenylosuccinate lyase; Provisional; Region: PRK07492 338966003916 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 338966003917 tetramer interface [polypeptide binding]; other site 338966003918 active site 338966003919 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966003920 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966003921 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 338966003922 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 338966003923 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 338966003924 dimerization interface [polypeptide binding]; other site 338966003925 ATP binding site [chemical binding]; other site 338966003926 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 338966003927 dimerization interface [polypeptide binding]; other site 338966003928 ATP binding site [chemical binding]; other site 338966003929 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966003930 active site 338966003931 NTP binding site [chemical binding]; other site 338966003932 metal binding triad [ion binding]; metal-binding site 338966003933 antibiotic binding site [chemical binding]; other site 338966003934 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 338966003935 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 338966003936 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 338966003937 ATP binding site [chemical binding]; other site 338966003938 putative Mg++ binding site [ion binding]; other site 338966003939 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 338966003940 nucleotide binding region [chemical binding]; other site 338966003941 ATP-binding site [chemical binding]; other site 338966003942 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 338966003943 HRDC domain; Region: HRDC; pfam00570 338966003944 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 338966003945 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 338966003946 conserved cys residue [active] 338966003947 amidophosphoribosyltransferase; Provisional; Region: PRK09123 338966003948 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 338966003949 active site 338966003950 tetramer interface [polypeptide binding]; other site 338966003951 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003952 active site 338966003953 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966003954 active site 338966003955 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 338966003956 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 338966003957 RNA binding surface [nucleotide binding]; other site 338966003958 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 338966003959 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 338966003960 nucleotide binding site/active site [active] 338966003961 HIT family signature motif; other site 338966003962 catalytic residue [active] 338966003963 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 338966003964 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 338966003965 MgtE intracellular N domain; Region: MgtE_N; smart00924 338966003966 FOG: CBS domain [General function prediction only]; Region: COG0517 338966003967 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 338966003968 ykoK element as predicted by Rfam (RF00380), score 111.51 338966003969 OstA-like protein; Region: OstA; cl00844 338966003970 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 338966003971 Organic solvent tolerance protein; Region: OstA_C; pfam04453 338966003972 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 338966003973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966003974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966003975 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 338966003976 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 338966003977 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 338966003978 substrate binding site [chemical binding]; other site 338966003979 active site 338966003980 catalytic residues [active] 338966003981 heterodimer interface [polypeptide binding]; other site 338966003982 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 338966003983 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966003984 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966003985 dimer interface [polypeptide binding]; other site 338966003986 putative CheW interface [polypeptide binding]; other site 338966003987 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 338966003988 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...; Region: LT_GEWL; cd00254 338966003989 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966003990 catalytic residue [active] 338966003991 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 338966003992 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 338966003993 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 338966003994 Rrf2 family protein; Region: rrf2_super; TIGR00738 338966003995 Transcriptional regulator; Region: Rrf2; pfam02082 338966003996 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966003997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 338966003998 FecR protein; Region: FecR; pfam04773 338966003999 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966004000 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 338966004001 dimer interface [polypeptide binding]; other site 338966004002 phosphorylation site [posttranslational modification] 338966004003 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 338966004004 ATP binding site [chemical binding]; other site 338966004005 Mg2+ binding site [ion binding]; other site 338966004006 G-X-G motif; other site 338966004007 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966004008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004009 active site 338966004010 phosphorylation site [posttranslational modification] 338966004011 intermolecular recognition site; other site 338966004012 dimerization interface [polypeptide binding]; other site 338966004013 ribonuclease R; Region: RNase_R; TIGR02063 338966004014 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 338966004015 RNA binding site [nucleotide binding]; other site 338966004016 RNB domain; Region: RNB; pfam00773 338966004017 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...; Region: S1_RNase_R; cd04471 338966004018 RNA binding site [nucleotide binding]; other site 338966004019 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966004020 biotin synthase; Region: bioB; TIGR00433 338966004021 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 338966004022 FeS/SAM binding site; other site 338966004023 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 338966004024 AAA domain; Region: AAA_26; pfam13500 338966004025 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 338966004026 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 338966004027 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 338966004028 inhibitor-cofactor binding pocket; inhibition site 338966004029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004030 catalytic residue [active] 338966004031 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966004032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004033 active site 338966004034 phosphorylation site [posttranslational modification] 338966004035 intermolecular recognition site; other site 338966004036 dimerization interface [polypeptide binding]; other site 338966004037 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 338966004038 Walker A motif; other site 338966004039 ATP binding site [chemical binding]; other site 338966004040 Walker B motif; other site 338966004041 arginine finger; other site 338966004042 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966004043 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 338966004044 CoenzymeA binding site [chemical binding]; other site 338966004045 subunit interaction site [polypeptide binding]; other site 338966004046 PHB binding site; other site 338966004047 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 338966004048 IHF dimer interface [polypeptide binding]; other site 338966004049 IHF - DNA interface [nucleotide binding]; other site 338966004050 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 338966004051 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 338966004052 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 338966004053 Walker A motif; other site 338966004054 ATP binding site [chemical binding]; other site 338966004055 Walker B motif; other site 338966004056 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 338966004057 Clp protease; Region: CLP_protease; pfam00574 338966004058 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 338966004059 oligomer interface [polypeptide binding]; other site 338966004060 active site residues [active] 338966004061 trigger factor; Region: tig; TIGR00115 338966004062 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 338966004063 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 338966004064 translation initiation factor Sui1; Validated; Region: PRK06824 338966004065 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 338966004066 putative rRNA binding site [nucleotide binding]; other site 338966004067 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 338966004068 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966004069 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 338966004070 motif II; other site 338966004071 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 338966004072 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 338966004073 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 338966004074 Active site cavity [active] 338966004075 catalytic acid [active] 338966004076 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 338966004077 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 338966004078 putative NADP binding site [chemical binding]; other site 338966004079 putative substrate binding site [chemical binding]; other site 338966004080 active site 338966004081 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 338966004082 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 338966004083 TPP-binding site; other site 338966004084 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 338966004085 PYR/PP interface [polypeptide binding]; other site 338966004086 dimer interface [polypeptide binding]; other site 338966004087 TPP binding site [chemical binding]; other site 338966004088 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966004089 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 338966004090 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 338966004091 FeS/SAM binding site; other site 338966004092 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 338966004093 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 338966004094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966004095 DNA-binding site [nucleotide binding]; DNA binding site 338966004096 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 338966004097 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338966004098 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 338966004099 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 338966004100 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 338966004101 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966004102 hybrid cluster protein; Provisional; Region: PRK05290 338966004103 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 338966004104 ACS interaction site; other site 338966004105 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 338966004106 hybrid metal cluster; other site 338966004107 PAS domain S-box; Region: sensory_box; TIGR00229 338966004108 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 338966004109 putative active site [active] 338966004110 heme pocket [chemical binding]; other site 338966004111 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 338966004112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966004113 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966004114 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 338966004115 active site 338966004116 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 338966004117 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 338966004118 Hemerythrin-like domain; Region: Hr-like; cd12108 338966004119 Fe binding site [ion binding]; other site 338966004120 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 338966004121 HPP family; Region: HPP; pfam04982 338966004122 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 338966004123 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 338966004124 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 338966004125 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 338966004126 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 338966004127 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 338966004128 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966004129 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 338966004130 Walker A/P-loop; other site 338966004131 ATP binding site [chemical binding]; other site 338966004132 Q-loop/lid; other site 338966004133 ABC transporter signature motif; other site 338966004134 Walker B; other site 338966004135 D-loop; other site 338966004136 H-loop/switch region; other site 338966004137 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004138 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 338966004139 intersubunit interface [polypeptide binding]; other site 338966004140 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 338966004141 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 338966004142 ABC-ATPase subunit interface; other site 338966004143 dimer interface [polypeptide binding]; other site 338966004144 putative PBP binding regions; other site 338966004145 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966004146 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 338966004147 Walker A motif; other site 338966004148 ATP binding site [chemical binding]; other site 338966004149 Walker B motif; other site 338966004150 arginine finger; other site 338966004151 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338966004152 Protein of unknown function DUF58; Region: DUF58; pfam01882 338966004153 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 338966004154 metal ion-dependent adhesion site (MIDAS); other site 338966004155 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 338966004156 metal ion-dependent adhesion site (MIDAS); other site 338966004157 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 338966004158 metal ion-dependent adhesion site (MIDAS); other site 338966004159 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338966004160 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 338966004161 dimerization interface [polypeptide binding]; other site 338966004162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966004163 dimer interface [polypeptide binding]; other site 338966004164 putative CheW interface [polypeptide binding]; other site 338966004165 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13647 338966004166 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 338966004167 Walker A/P-loop; other site 338966004168 ATP binding site [chemical binding]; other site 338966004169 Q-loop/lid; other site 338966004170 ABC transporter signature motif; other site 338966004171 Walker B; other site 338966004172 D-loop; other site 338966004173 H-loop/switch region; other site 338966004174 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 338966004175 cobalt transport protein CbiN; Provisional; Region: PRK02898 338966004176 cobalt transport protein CbiM; Validated; Region: PRK08319 338966004177 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 338966004178 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966004179 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 338966004180 N-terminal plug; other site 338966004181 ligand-binding site [chemical binding]; other site 338966004182 Predicted amidohydrolase [General function prediction only]; Region: COG0388 338966004183 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 338966004184 active site 338966004185 catalytic triad [active] 338966004186 dimer interface [polypeptide binding]; other site 338966004187 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 338966004188 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966004189 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 338966004190 N-terminal plug; other site 338966004191 ligand-binding site [chemical binding]; other site 338966004192 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004193 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966004194 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 338966004195 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966004196 Predicted transporter (DUF2162); Region: DUF2162; pfam09930 338966004197 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 338966004198 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004199 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 338966004200 N-terminal plug; other site 338966004201 ligand-binding site [chemical binding]; other site 338966004202 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338966004203 TolR protein; Region: tolR; TIGR02801 338966004204 TolQ protein; Region: tolQ; TIGR02796 338966004205 cobalt transport protein CbiN; Provisional; Region: PRK02898 338966004206 cobalt transport protein CbiM; Validated; Region: PRK08319 338966004207 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 338966004208 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 338966004209 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; COG0310 338966004210 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 338966004211 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 338966004212 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 338966004213 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 338966004214 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 338966004215 N-terminal plug; other site 338966004216 ligand-binding site [chemical binding]; other site 338966004217 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 338966004218 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 338966004219 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338966004220 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 338966004221 Uncharacterized subfamily of S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase_like; cd11724 338966004222 putative SAM binding site [chemical binding]; other site 338966004223 putative homodimer interface [polypeptide binding]; other site 338966004224 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 338966004225 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 338966004226 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 338966004227 N-terminal plug; other site 338966004228 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004229 ligand-binding site [chemical binding]; other site 338966004230 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 338966004231 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004232 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 338966004233 intersubunit interface [polypeptide binding]; other site 338966004234 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 338966004235 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 338966004236 ABC-ATPase subunit interface; other site 338966004237 dimer interface [polypeptide binding]; other site 338966004238 putative PBP binding regions; other site 338966004239 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966004240 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 338966004241 Walker A/P-loop; other site 338966004242 ATP binding site [chemical binding]; other site 338966004243 Q-loop/lid; other site 338966004244 ABC transporter signature motif; other site 338966004245 Walker B; other site 338966004246 D-loop; other site 338966004247 H-loop/switch region; other site 338966004248 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004249 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966004250 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966004251 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004252 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 338966004253 N-terminal plug; other site 338966004254 ligand-binding site [chemical binding]; other site 338966004255 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 338966004256 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 338966004257 Walker A motif; other site 338966004258 ATP binding site [chemical binding]; other site 338966004259 Walker B motif; other site 338966004260 arginine finger; other site 338966004261 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 338966004262 metal ion-dependent adhesion site (MIDAS); other site 338966004263 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 338966004264 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 338966004265 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966004266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966004267 Walker A/P-loop; other site 338966004268 ATP binding site [chemical binding]; other site 338966004269 Q-loop/lid; other site 338966004270 ABC transporter signature motif; other site 338966004271 Walker B; other site 338966004272 D-loop; other site 338966004273 H-loop/switch region; other site 338966004274 ABC-2 type transporter; Region: ABC2_membrane; cl17235 338966004275 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 338966004276 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 338966004277 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004278 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 338966004279 N-terminal plug; other site 338966004280 ligand-binding site [chemical binding]; other site 338966004281 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 338966004282 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 338966004283 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 338966004284 putative active site [active] 338966004285 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 338966004286 Precorrin-8X methylmutase; Region: CbiC; pfam02570 338966004287 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 338966004288 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 338966004289 FeS/SAM binding site; other site 338966004290 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 338966004291 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 338966004292 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...; Region: class_II_aaRS-like_core; cl00268 338966004293 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966004294 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966004295 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 338966004296 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; cl17220 338966004297 Ferredoxin [Energy production and conversion]; Region: COG1146 338966004298 4Fe-4S binding domain; Region: Fer4; pfam00037 338966004299 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 338966004300 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 338966004301 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966004302 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 338966004303 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338966004304 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 338966004305 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 338966004306 Walker A; other site 338966004307 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966004308 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 338966004309 dimer interface [polypeptide binding]; other site 338966004310 substrate binding site [chemical binding]; other site 338966004311 metal binding site [ion binding]; metal-binding site 338966004312 membrane ATPase/protein kinase; Provisional; Region: PRK09435 338966004313 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 338966004314 Walker A; other site 338966004315 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 338966004316 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 338966004317 active site 338966004318 substrate binding site [chemical binding]; other site 338966004319 coenzyme B12 binding site [chemical binding]; other site 338966004320 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 338966004321 B12 binding site [chemical binding]; other site 338966004322 cobalt ligand [ion binding]; other site 338966004323 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 338966004324 heterodimer interface [polypeptide binding]; other site 338966004325 substrate interaction site [chemical binding]; other site 338966004326 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 338966004327 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004328 Zn2+ binding site [ion binding]; other site 338966004329 Mg2+ binding site [ion binding]; other site 338966004330 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 338966004331 Ligand Binding Site [chemical binding]; other site 338966004332 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 338966004333 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 338966004334 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 338966004335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004336 catalytic residue [active] 338966004337 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...; Region: PRAI; cd00405 338966004338 active site 338966004339 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 338966004340 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 338966004341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966004342 catalytic residue [active] 338966004343 homoserine dehydrogenase; Provisional; Region: PRK06349 338966004344 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 338966004345 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 338966004346 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 338966004347 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 338966004348 putative RNA binding site [nucleotide binding]; other site 338966004349 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 338966004350 homopentamer interface [polypeptide binding]; other site 338966004351 active site 338966004352 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 338966004353 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 338966004354 Precorrin-8X methylmutase; Region: CbiC; pfam02570 338966004355 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 338966004356 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 338966004357 putative active site [active] 338966004358 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 338966004359 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 338966004360 MG2 domain; Region: A2M_N; pfam01835 338966004361 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 338966004362 Alpha-2-macroglobulin family; Region: A2M; pfam00207 338966004363 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 338966004364 surface patch; other site 338966004365 thioester region; other site 338966004366 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 338966004367 specificity defining residues; other site 338966004368 AMMECR1; Region: AMMECR1; cl00911 338966004369 VanW like protein; Region: VanW; pfam04294 338966004370 G5 domain; Region: G5; pfam07501 338966004371 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 338966004372 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 338966004373 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 338966004374 FeS/SAM binding site; other site 338966004375 HemN C-terminal domain; Region: HemN_C; pfam06969 338966004376 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 338966004377 active site 338966004378 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 338966004379 Protein of unknown function (DUF507); Region: DUF507; cl01112 338966004380 Protein of unknown function (DUF507); Region: DUF507; cl01112 338966004381 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966004382 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966004383 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...; Region: LT_GEWL; cd00254 338966004384 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966004385 catalytic residue [active] 338966004386 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 338966004387 SmpB-tmRNA interface; other site 338966004388 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 338966004389 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966004390 active site 338966004391 Int/Topo IB signature motif; other site 338966004392 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 338966004393 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 338966004394 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 338966004395 ATP binding site [chemical binding]; other site 338966004396 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; cl17251 338966004397 putative Mg++ binding site [ion binding]; other site 338966004398 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966004399 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 338966004400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966004401 Integrase core domain; Region: rve; pfam00665 338966004402 transposase/IS protein; Provisional; Region: PRK09183 338966004403 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 338966004404 Walker A motif; other site 338966004405 ATP binding site [chemical binding]; other site 338966004406 Walker B motif; other site 338966004407 arginine finger; other site 338966004408 AAA domain; Region: AAA_22; pfam13401 338966004409 Integrase core domain; Region: rve; pfam00665 338966004410 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966004411 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966004412 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 338966004413 catalytic residues [active] 338966004414 catalytic nucleophile [active] 338966004415 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966004416 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966004417 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966004418 Synaptic Site I dimer interface [polypeptide binding]; other site 338966004419 DNA binding site [nucleotide binding] 338966004420 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 338966004421 DNA-binding interface [nucleotide binding]; DNA binding site 338966004422 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966004423 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 338966004424 ATP binding site [chemical binding]; other site 338966004425 putative Mg++ binding site [ion binding]; other site 338966004426 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 338966004427 GIY-YIG motif/motif A; other site 338966004428 active site 338966004429 catalytic site [active] 338966004430 metal binding site [ion binding]; metal-binding site 338966004431 Integrase core domain; Region: rve; pfam00665 338966004432 AAA domain; Region: AAA_22; pfam13401 338966004433 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 338966004434 active site 338966004435 Int/Topo IB signature motif; other site 338966004436 DNA binding site [nucleotide binding] 338966004437 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 338966004438 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 338966004439 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 338966004440 homodimer interface [polypeptide binding]; other site 338966004441 substrate-cofactor binding pocket; other site 338966004442 catalytic residue [active] 338966004443 pyruvate carboxylase; Reviewed; Region: PRK12999 338966004444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966004445 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 338966004446 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338966004447 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966004448 active site 338966004449 catalytic residues [active] 338966004450 metal binding site [ion binding]; metal-binding site 338966004451 homodimer binding site [polypeptide binding]; other site 338966004452 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 338966004453 carboxyltransferase (CT) interaction site; other site 338966004454 biotinylation site [posttranslational modification]; other site 338966004455 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 338966004456 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 338966004457 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 338966004458 DNA binding site [nucleotide binding] 338966004459 active site 338966004460 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004462 active site 338966004463 phosphorylation site [posttranslational modification] 338966004464 intermolecular recognition site; other site 338966004465 dimerization interface [polypeptide binding]; other site 338966004466 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966004467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966004468 metal binding site [ion binding]; metal-binding site 338966004469 active site 338966004470 I-site; other site 338966004471 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966004472 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 338966004473 putative active site [active] 338966004474 heme pocket [chemical binding]; other site 338966004475 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 338966004476 putative active site [active] 338966004477 heme pocket [chemical binding]; other site 338966004478 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 338966004479 dimer interface [polypeptide binding]; other site 338966004480 phosphorylation site [posttranslational modification] 338966004481 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 338966004482 ATP binding site [chemical binding]; other site 338966004483 Mg2+ binding site [ion binding]; other site 338966004484 G-X-G motif; other site 338966004485 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966004486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004487 active site 338966004488 phosphorylation site [posttranslational modification] 338966004489 intermolecular recognition site; other site 338966004490 dimerization interface [polypeptide binding]; other site 338966004491 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 338966004492 putative binding surface; other site 338966004493 active site 338966004494 PII uridylyl-transferase; Provisional; Region: PRK05092 338966004495 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 338966004496 metal binding triad; other site 338966004497 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 338966004498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004499 Zn2+ binding site [ion binding]; other site 338966004500 Mg2+ binding site [ion binding]; other site 338966004501 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 338966004502 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 338966004503 Uncharacterized conserved protein [Function unknown]; Region: COG0432 338966004504 Chorismate mutase type II; Region: CM_2; pfam01817 338966004505 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 338966004506 Prephenate dehydratase; Region: PDT; pfam00800 338966004507 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 338966004508 putative L-Phe binding site [chemical binding]; other site 338966004509 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 338966004510 prephenate dehydrogenase; Validated; Region: PRK08507 338966004511 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 338966004512 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 338966004513 hinge; other site 338966004514 active site 338966004515 cytidylate kinase; Provisional; Region: cmk; PRK00023 338966004516 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 338966004517 CMP-binding site; other site 338966004518 The sites determining sugar specificity; other site 338966004519 LytB protein; Region: LYTB; cl00507 338966004520 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 338966004521 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 338966004522 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 338966004523 RNA binding site [nucleotide binding]; other site 338966004524 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 338966004525 RNA binding site [nucleotide binding]; other site 338966004526 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...; Region: S1_RPS1_repeat_ec3; cd05688 338966004527 RNA binding site [nucleotide binding]; other site 338966004528 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 338966004529 RNA binding site [nucleotide binding]; other site 338966004530 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...; Region: S1_RPS1_repeat_ec5; cd05690 338966004531 RNA binding site [nucleotide binding]; other site 338966004532 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 338966004533 RNA binding site [nucleotide binding]; other site 338966004534 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 338966004535 IHF dimer interface [polypeptide binding]; other site 338966004536 IHF - DNA interface [nucleotide binding]; other site 338966004537 putative geopeptide radical SAM maturase; Region: geopep_mat_rSAM; TIGR04280 338966004538 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 338966004539 FeS/SAM binding site; other site 338966004540 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 338966004541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966004542 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 338966004543 Coenzyme A binding pocket [chemical binding]; other site 338966004544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 338966004545 Transposase IS200 like; Region: Y1_Tnp; pfam01797 338966004546 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 338966004547 DnaA box-binding interface [nucleotide binding]; other site 338966004548 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 338966004549 FeS/SAM binding site; other site 338966004550 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966004551 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 338966004552 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 338966004553 N-terminal plug; other site 338966004554 ligand-binding site [chemical binding]; other site 338966004555 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966004556 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 338966004557 Double zinc ribbon; Region: DZR; pfam12773 338966004558 RDD family; Region: RDD; pfam06271 338966004559 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 338966004560 D5 N terminal like; Region: D5_N; smart00885 338966004561 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 338966004562 integrase; Provisional; Region: PRK09692 338966004563 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 338966004564 active site 338966004565 Int/Topo IB signature motif; other site 338966004566 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 338966004567 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 338966004568 active site 338966004569 dimer interface [polypeptide binding]; other site 338966004570 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 338966004571 dimer interface [polypeptide binding]; other site 338966004572 active site 338966004573 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 338966004574 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 338966004575 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 338966004576 ATP binding site [chemical binding]; other site 338966004577 Mg++ binding site [ion binding]; other site 338966004578 motif III; other site 338966004579 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 338966004580 nucleotide binding region [chemical binding]; other site 338966004581 ATP-binding site [chemical binding]; other site 338966004582 heat shock protein 90; Provisional; Region: PRK05218 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 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 338966004588 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 338966004589 dimer interface [polypeptide binding]; other site 338966004590 active site 338966004591 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 338966004592 Flagellin N-methylase; Region: FliB; cl00497 338966004593 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966004594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004595 active site 338966004596 phosphorylation site [posttranslational modification] 338966004597 intermolecular recognition site; other site 338966004598 dimerization interface [polypeptide binding]; other site 338966004599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004600 Zn2+ binding site [ion binding]; other site 338966004601 Mg2+ binding site [ion binding]; other site 338966004602 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 338966004603 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 338966004604 Competence protein; Region: Competence; pfam03772 338966004605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966004606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004607 active site 338966004608 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966004609 phosphorylation site [posttranslational modification] 338966004610 intermolecular recognition site; other site 338966004611 dimerization interface [polypeptide binding]; other site 338966004612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966004613 metal binding site [ion binding]; metal-binding site 338966004614 active site 338966004615 I-site; other site 338966004616 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 338966004617 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...; Region: HisRS-like_core; cd00773 338966004618 dimer interface [polypeptide binding]; other site 338966004619 motif 1; other site 338966004620 active site 338966004621 motif 2; other site 338966004622 motif 3; other site 338966004623 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 338966004624 anticodon binding site; other site 338966004625 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 338966004626 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 338966004627 active site 338966004628 Zn binding site [ion binding]; other site 338966004629 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 338966004630 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 338966004631 N-terminal plug; other site 338966004632 ligand-binding site [chemical binding]; other site 338966004633 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 338966004634 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 338966004635 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 338966004636 oligomer interface [polypeptide binding]; other site 338966004637 active site 338966004638 metal binding site [ion binding]; metal-binding site 338966004639 Cupin domain; Region: Cupin_2; pfam07883 338966004640 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 338966004641 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 338966004642 dimer interface [polypeptide binding]; other site 338966004643 active site 338966004644 heme binding site [chemical binding]; other site 338966004645 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 338966004646 Methyltransferase domain; Region: Methyltransf_32; pfam13679 338966004647 intracellular protease, PfpI family; Region: PfpI; TIGR01382 338966004648 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 338966004649 conserved cys residue [active] 338966004650 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 338966004651 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 338966004652 ATP-grasp domain; Region: ATP-grasp; pfam02222 338966004653 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966004654 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 338966004655 dimerization interface [polypeptide binding]; other site 338966004656 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966004657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966004658 dimer interface [polypeptide binding]; other site 338966004659 putative CheW interface [polypeptide binding]; other site 338966004660 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966004661 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966004662 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 338966004663 DNA binding residues [nucleotide binding] 338966004664 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966004665 Sensory domain found in PocR; Region: PocR; pfam10114 338966004666 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966004667 PAS domain S-box; Region: sensory_box; TIGR00229 338966004668 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 338966004669 putative active site [active] 338966004670 heme pocket [chemical binding]; other site 338966004671 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966004672 GAF domain; Region: GAF; pfam01590 338966004673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966004674 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 338966004675 dimer interface [polypeptide binding]; other site 338966004676 phosphorylation site [posttranslational modification] 338966004677 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 338966004678 ATP binding site [chemical binding]; other site 338966004679 Mg2+ binding site [ion binding]; other site 338966004680 G-X-G motif; other site 338966004681 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 338966004682 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966004683 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 338966004684 sequence-specific DNA binding site [nucleotide binding]; other site 338966004685 salt bridge; other site 338966004686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 338966004687 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 338966004688 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 338966004689 chaperone protein DnaJ; Provisional; Region: PRK10767 338966004690 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 338966004691 HSP70 interaction site [polypeptide binding]; other site 338966004692 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 338966004693 substrate binding site [polypeptide binding]; other site 338966004694 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 338966004695 Zn binding sites [ion binding]; other site 338966004696 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 338966004697 dimer interface [polypeptide binding]; other site 338966004698 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 338966004699 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 338966004700 nucleotide binding site [chemical binding]; other site 338966004701 GrpE; Region: GrpE; pfam01025 338966004702 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 338966004703 dimer interface [polypeptide binding]; other site 338966004704 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 338966004705 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 338966004706 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 338966004707 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966004708 GAF domain; Region: GAF; pfam01590 338966004709 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338966004710 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966004711 Zn2+ binding site [ion binding]; other site 338966004712 Mg2+ binding site [ion binding]; other site 338966004713 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966004714 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 338966004715 S-adenosylmethionine binding site [chemical binding]; other site 338966004716 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 338966004717 glutamate racemase; Provisional; Region: PRK00865 338966004718 Sporulation and spore germination; Region: Germane; pfam10646 338966004719 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 338966004720 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 338966004721 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 338966004722 substrate binding pocket [chemical binding]; other site 338966004723 dimer interface [polypeptide binding]; other site 338966004724 inhibitor binding site; inhibition site 338966004725 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 338966004726 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 338966004727 B12 binding site [chemical binding]; other site 338966004728 cobalt ligand [ion binding]; other site 338966004729 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 338966004730 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966004731 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338966004732 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 338966004733 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 338966004734 S-adenosylmethionine binding site [chemical binding]; other site 338966004735 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 338966004736 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 338966004737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966004738 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966004739 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 338966004740 active site 338966004741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966004742 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 338966004743 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 338966004744 putative ADP-binding pocket [chemical binding]; other site 338966004745 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966004746 Methyltransferase domain; Region: Methyltransf_23; pfam13489 338966004747 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 338966004748 S-adenosylmethionine binding site [chemical binding]; other site 338966004749 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 338966004750 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 338966004751 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 338966004752 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 338966004753 NADP binding site [chemical binding]; other site 338966004754 active site 338966004755 putative substrate binding site [chemical binding]; other site 338966004756 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 338966004757 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966004758 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 338966004759 putative active site [active] 338966004760 heme pocket [chemical binding]; other site 338966004761 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 338966004762 dimer interface [polypeptide binding]; other site 338966004763 phosphorylation site [posttranslational modification] 338966004764 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 338966004765 ATP binding site [chemical binding]; other site 338966004766 Mg2+ binding site [ion binding]; other site 338966004767 G-X-G motif; other site 338966004768 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966004769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004770 active site 338966004771 phosphorylation site [posttranslational modification] 338966004772 intermolecular recognition site; other site 338966004773 dimerization interface [polypeptide binding]; other site 338966004774 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 338966004775 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 338966004776 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 338966004777 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 338966004778 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 338966004779 B12 binding site [chemical binding]; other site 338966004780 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 338966004781 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 338966004782 putative amphipathic alpha helix; other site 338966004783 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 338966004784 catalytic residues [active] 338966004785 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 338966004786 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 338966004787 dimerization interface [polypeptide binding]; other site 338966004788 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966004789 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 338966004790 putative active site [active] 338966004791 heme pocket [chemical binding]; other site 338966004792 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 338966004793 dimer interface [polypeptide binding]; other site 338966004794 phosphorylation site [posttranslational modification] 338966004795 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 338966004796 ATP binding site [chemical binding]; other site 338966004797 Mg2+ binding site [ion binding]; other site 338966004798 G-X-G motif; other site 338966004799 Response regulator receiver domain; Region: Response_reg; pfam00072 338966004800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966004801 active site 338966004802 phosphorylation site [posttranslational modification] 338966004803 intermolecular recognition site; other site 338966004804 dimerization interface [polypeptide binding]; other site 338966004805 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 338966004806 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966004807 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966004808 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 338966004809 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 338966004810 putative binding surface; other site 338966004811 active site 338966004812 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 338966004813 putative FMN binding site [chemical binding]; other site 338966004814 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 338966004815 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 338966004816 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 338966004817 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 338966004818 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966004819 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 338966004820 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 338966004821 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966004822 PAS domain S-box; Region: sensory_box; TIGR00229 338966004823 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 338966004824 putative active site [active] 338966004825 heme pocket [chemical binding]; other site 338966004826 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 338966004827 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 338966004828 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 338966004829 PBP superfamily domain; Region: PBP_like_2; pfam12849 338966004830 molybdenum-pterin binding domain; Region: Mop; TIGR00638 338966004831 molybdenum-pterin binding domain; Region: Mop; TIGR00638 338966004832 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 338966004833 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 338966004834 dimer interface [polypeptide binding]; other site 338966004835 putative functional site; other site 338966004836 putative MPT binding site; other site 338966004837 PBP superfamily domain; Region: PBP_like; pfam12727 338966004838 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 338966004839 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 338966004840 dimer interface [polypeptide binding]; other site 338966004841 putative functional site; other site 338966004842 putative MPT binding site; other site 338966004843 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966004844 synthetase active site [active] 338966004845 NTP binding site [chemical binding]; other site 338966004846 metal binding site [ion binding]; metal-binding site 338966004847 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966004848 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 338966004849 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 338966004850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966004851 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 338966004852 Walker A/P-loop; other site 338966004853 ATP binding site [chemical binding]; other site 338966004854 Q-loop/lid; other site 338966004855 ABC transporter signature motif; other site 338966004856 Walker B; other site 338966004857 D-loop; other site 338966004858 H-loop/switch region; other site 338966004859 TOBE domain; Region: TOBE; cl01440 338966004860 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 338966004861 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966004862 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338966004863 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966004864 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 338966004865 non-specific DNA binding site [nucleotide binding]; other site 338966004866 salt bridge; other site 338966004867 sequence-specific DNA binding site [nucleotide binding]; other site 338966004868 PBP superfamily domain; Region: PBP_like; pfam12727 338966004869 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 338966004870 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 338966004871 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 338966004872 dimer interface [polypeptide binding]; other site 338966004873 putative PBP binding regions; other site 338966004874 ABC-ATPase subunit interface; other site 338966004875 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966004876 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 338966004877 Walker A/P-loop; other site 338966004878 ATP binding site [chemical binding]; other site 338966004879 Q-loop/lid; other site 338966004880 ABC transporter signature motif; other site 338966004881 Walker B; other site 338966004882 D-loop; other site 338966004883 H-loop/switch region; other site 338966004884 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 338966004885 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 338966004886 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 338966004887 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338966004888 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 338966004889 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 338966004890 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 338966004891 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 338966004892 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004893 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 338966004894 FeS/SAM binding site; other site 338966004895 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004896 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 338966004897 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 338966004898 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; cl17244 338966004899 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966004900 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966004901 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 338966004902 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 338966004903 N-terminal plug; other site 338966004904 ligand-binding site [chemical binding]; other site 338966004905 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966004906 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 338966004907 S-adenosylmethionine binding site [chemical binding]; other site 338966004908 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004909 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 338966004910 FeS/SAM binding site; other site 338966004911 Uncharacterized conserved protein [Function unknown]; Region: COG2014 338966004912 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966004913 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966004914 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 338966004915 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004916 putative ligand binding residues [chemical binding]; other site 338966004917 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 338966004918 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 338966004919 Putative esterase; Region: Esterase; pfam00756 338966004920 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004921 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 338966004922 intersubunit interface [polypeptide binding]; other site 338966004923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966004924 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966004925 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966004926 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 338966004927 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 338966004928 N-terminal plug; other site 338966004929 ligand-binding site [chemical binding]; other site 338966004930 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966004931 PBP superfamily domain; Region: PBP_like_2; pfam12849 338966004932 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 338966004933 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966004934 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 338966004935 FeS/SAM binding site; other site 338966004936 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 338966004937 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 338966004938 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966004939 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 338966004940 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 338966004941 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 338966004942 putative dimer interface [polypeptide binding]; other site 338966004943 [2Fe-2S] cluster binding site [ion binding]; other site 338966004944 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 338966004945 dimer interface [polypeptide binding]; other site 338966004946 [2Fe-2S] cluster binding site [ion binding]; other site 338966004947 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966004948 SLBB domain; Region: SLBB; pfam10531 338966004949 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338966004950 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 338966004951 catalytic loop [active] 338966004952 iron binding site [ion binding]; other site 338966004953 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338966004954 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 338966004955 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 338966004956 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 338966004957 biotin synthase; Provisional; Region: PRK07094 338966004958 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 338966004959 FeS/SAM binding site; other site 338966004960 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 338966004961 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 338966004962 FeS/SAM binding site; other site 338966004963 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 338966004964 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 338966004965 Aspartase; Region: Aspartase; cd01357 338966004966 active sites [active] 338966004967 tetramer interface [polypeptide binding]; other site 338966004968 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 338966004969 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 338966004970 G1 box; other site 338966004971 GTP/Mg2+ binding site [chemical binding]; other site 338966004972 Switch I region; other site 338966004973 G2 box; other site 338966004974 Switch II region; other site 338966004975 G3 box; other site 338966004976 G4 box; other site 338966004977 G5 box; other site 338966004978 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 338966004979 PAS domain; Region: PAS_9; pfam13426 338966004980 putative active site [active] 338966004981 heme pocket [chemical binding]; other site 338966004982 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 338966004983 LytTr DNA-binding domain; Region: LytTR; smart00850 338966004984 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 338966004985 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 338966004986 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 338966004987 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 338966004988 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 338966004989 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 338966004990 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 338966004991 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 338966004992 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 338966004993 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 338966004994 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 338966004995 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338966004996 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 338966004997 beta subunit interaction interface [polypeptide binding]; other site 338966004998 Walker A motif; other site 338966004999 ATP binding site [chemical binding]; other site 338966005000 Walker B motif; other site 338966005001 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966005002 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 338966005003 core domain interface [polypeptide binding]; other site 338966005004 delta subunit interface [polypeptide binding]; other site 338966005005 epsilon subunit interface [polypeptide binding]; other site 338966005006 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 338966005007 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 338966005008 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 338966005009 alpha subunit interaction interface [polypeptide binding]; other site 338966005010 Walker A motif; other site 338966005011 ATP binding site [chemical binding]; other site 338966005012 Walker B motif; other site 338966005013 inhibitor binding site; inhibition site 338966005014 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 338966005015 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 338966005016 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 338966005017 gamma subunit interface [polypeptide binding]; other site 338966005018 epsilon subunit interface [polypeptide binding]; other site 338966005019 LBP interface [polypeptide binding]; other site 338966005020 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 338966005021 Major Facilitator Superfamily; Region: MFS_1; pfam07690 338966005022 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 338966005023 putative substrate translocation pore; other site 338966005024 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 338966005025 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 338966005026 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 338966005027 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966005028 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966005029 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 338966005030 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966005031 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 338966005032 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 338966005033 dimer interface [polypeptide binding]; other site 338966005034 active site 338966005035 CoA binding pocket [chemical binding]; other site 338966005036 lipoxygenase; Region: PLN02264 338966005037 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 338966005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966005039 NAD(P) binding site [chemical binding]; other site 338966005040 active site 338966005041 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 338966005042 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 338966005043 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966005044 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 338966005045 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 338966005046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005047 homodimer interface [polypeptide binding]; other site 338966005048 catalytic residue [active] 338966005049 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966005050 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 338966005051 Benzoate CoA ligase (BCL) and similar adenylate forming enzymes; Region: BCL_like; cd05919 338966005052 dimer interface [polypeptide binding]; other site 338966005053 acyl-activating enzyme (AAE) consensus motif; other site 338966005054 putative active site [active] 338966005055 putative AMP binding site [chemical binding]; other site 338966005056 putative CoA binding site [chemical binding]; other site 338966005057 chemical substrate binding site [chemical binding]; other site 338966005058 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 338966005059 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 338966005060 ATP binding site [chemical binding]; other site 338966005061 Mg2+ binding site [ion binding]; other site 338966005062 G-X-G motif; other site 338966005063 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 338966005064 anti sigma factor interaction site; other site 338966005065 regulatory phosphorylation site [posttranslational modification]; other site 338966005066 Cache domain; Region: Cache_1; pfam02743 338966005067 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 338966005068 dimerization interface [polypeptide binding]; other site 338966005069 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 338966005070 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 338966005071 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; cl17432 338966005072 NMT1/THI5 like; Region: NMT1; pfam09084 338966005073 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 338966005074 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 338966005075 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 338966005076 molybdenum-pterin binding domain; Region: Mop; TIGR00638 338966005077 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 338966005078 putative nucleotide binding site [chemical binding]; other site 338966005079 putative substrate binding site [chemical binding]; other site 338966005080 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 338966005081 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 338966005082 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966005083 Cysteine-rich domain; Region: CCG; pfam02754 338966005084 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 338966005085 DsrC like protein; Region: DsrC; pfam04358 338966005086 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 338966005087 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 338966005088 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 338966005089 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 338966005090 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 338966005091 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 338966005092 Walker A/P-loop; other site 338966005093 ATP binding site [chemical binding]; other site 338966005094 Q-loop/lid; other site 338966005095 ABC transporter signature motif; other site 338966005096 Walker B; other site 338966005097 D-loop; other site 338966005098 H-loop/switch region; other site 338966005099 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 338966005100 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 338966005101 Walker A/P-loop; other site 338966005102 ATP binding site [chemical binding]; other site 338966005103 Q-loop/lid; other site 338966005104 ABC transporter signature motif; other site 338966005105 Walker B; other site 338966005106 D-loop; other site 338966005107 H-loop/switch region; other site 338966005108 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 338966005109 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 338966005110 N-terminal plug; other site 338966005111 ligand-binding site [chemical binding]; other site 338966005112 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 338966005113 PBP superfamily domain; Region: PBP_like_2; pfam12849 338966005114 PBP superfamily domain; Region: PBP_like_2; pfam12849 338966005115 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 338966005116 catalytic core [active] 338966005117 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 338966005118 Ligand binding site; other site 338966005119 metal-binding site 338966005120 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966005121 Zn2+ binding site [ion binding]; other site 338966005122 Mg2+ binding site [ion binding]; other site 338966005123 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338966005124 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966005125 acyl-activating enzyme (AAE) consensus motif; other site 338966005126 active site 338966005127 AMP binding site [chemical binding]; other site 338966005128 CoA binding site [chemical binding]; other site 338966005129 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 338966005130 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 338966005131 S-adenosylmethionine binding site [chemical binding]; other site 338966005132 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966005133 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966005134 Cysteine-rich domain; Region: CCG; pfam02754 338966005135 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 338966005136 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 338966005137 catalytic loop [active] 338966005138 iron binding site [ion binding]; other site 338966005139 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 338966005140 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 338966005141 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 338966005142 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 338966005143 putative MPT binding site; other site 338966005144 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 338966005145 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966005146 GAF domain; Region: GAF; pfam01590 338966005147 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 338966005148 Walker A motif; other site 338966005149 ATP binding site [chemical binding]; other site 338966005150 Walker B motif; other site 338966005151 arginine finger; other site 338966005152 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966005153 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 338966005154 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966005155 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 338966005156 active site 338966005157 motif I; other site 338966005158 motif II; other site 338966005159 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338966005160 EamA-like transporter family; Region: EamA; pfam00892 338966005161 EamA-like transporter family; Region: EamA; pfam00892 338966005162 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 338966005163 pentamer interface [polypeptide binding]; other site 338966005164 dodecaamer interface [polypeptide binding]; other site 338966005165 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 338966005166 Ligand Binding Site [chemical binding]; other site 338966005167 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966005168 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 338966005169 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966005170 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966005171 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 338966005172 motif II; other site 338966005173 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966005174 DTW domain; Region: DTW; cl01221 338966005175 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 338966005176 binding surface 338966005177 TPR motif; other site 338966005178 TPR repeat; Region: TPR_11; pfam13414 338966005179 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 338966005180 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005181 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 338966005182 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 338966005183 dimer interface [polypeptide binding]; other site 338966005184 PYR/PP interface [polypeptide binding]; other site 338966005185 TPP binding site [chemical binding]; other site 338966005186 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338966005187 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 338966005188 TPP-binding site [chemical binding]; other site 338966005189 dimer interface [polypeptide binding]; other site 338966005190 LexA repressor; Validated; Region: PRK00215 338966005191 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 338966005192 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 338966005193 Catalytic site [active] 338966005194 DNA polymerase IV; Reviewed; Region: PRK03103 338966005195 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966005196 active site 338966005197 DNA binding site [nucleotide binding] 338966005198 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966005199 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005200 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005201 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005202 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005203 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005204 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 338966005205 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 338966005206 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 338966005207 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 338966005208 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 338966005209 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 338966005210 Walker A/P-loop; other site 338966005211 ATP binding site [chemical binding]; other site 338966005212 Q-loop/lid; other site 338966005213 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 338966005214 ABC transporter signature motif; other site 338966005215 Walker B; other site 338966005216 D-loop; other site 338966005217 H-loop/switch region; other site 338966005218 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 338966005219 ATP-NAD kinase; Region: NAD_kinase; pfam01513 338966005220 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 338966005221 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 338966005222 HIGH motif; other site 338966005223 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338966005224 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 338966005225 active site 338966005226 KMSKS motif; other site 338966005227 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 338966005228 tRNA binding surface [nucleotide binding]; other site 338966005229 anticodon binding site; other site 338966005230 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 338966005231 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 338966005232 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 338966005233 glutamine binding [chemical binding]; other site 338966005234 catalytic triad [active] 338966005235 anthranilate synthase component I; Provisional; Region: PRK13565 338966005236 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 338966005237 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 338966005238 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 338966005239 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005241 active site 338966005242 phosphorylation site [posttranslational modification] 338966005243 intermolecular recognition site; other site 338966005244 dimerization interface [polypeptide binding]; other site 338966005245 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966005246 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 338966005247 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 338966005248 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 338966005249 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 338966005250 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 338966005251 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 338966005252 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 338966005253 CoA binding domain; Region: CoA_binding_2; pfam13380 338966005254 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 338966005255 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 338966005256 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 338966005257 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 338966005258 lipoyl attachment site [posttranslational modification]; other site 338966005259 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 338966005260 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 338966005261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005262 tetramer interface [polypeptide binding]; other site 338966005263 catalytic residue [active] 338966005264 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 338966005265 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 338966005266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966005267 catalytic residue [active] 338966005268 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338966005269 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 338966005270 substrate binding pocket [chemical binding]; other site 338966005271 membrane-bound complex binding site; other site 338966005272 hinge residues; other site 338966005273 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966005274 GAF domain; Region: GAF; pfam01590 338966005275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966005276 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 338966005277 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 338966005278 ATP binding site [chemical binding]; other site 338966005279 Mg2+ binding site [ion binding]; other site 338966005280 G-X-G motif; other site 338966005281 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 338966005282 Lumazine binding domain; Region: Lum_binding; pfam00677 338966005283 Lumazine binding domain; Region: Lum_binding; pfam00677 338966005284 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 338966005285 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 338966005286 catalytic motif [active] 338966005287 Zn binding site [ion binding]; other site 338966005288 RibD C-terminal domain; Region: RibD_C; cl17279 338966005289 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 338966005290 ATP cone domain; Region: ATP-cone; pfam03477 338966005291 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 338966005292 catalytic motif [active] 338966005293 Zn binding site [ion binding]; other site 338966005294 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005296 active site 338966005297 phosphorylation site [posttranslational modification] 338966005298 intermolecular recognition site; other site 338966005299 dimerization interface [polypeptide binding]; other site 338966005300 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966005301 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 338966005302 Walker A motif; other site 338966005303 ATP binding site [chemical binding]; other site 338966005304 Walker B motif; other site 338966005305 arginine finger; other site 338966005306 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966005307 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 338966005308 putative CheA interaction surface; other site 338966005309 PAS fold; Region: PAS_4; pfam08448 338966005310 PAS fold; Region: PAS_4; pfam08448 338966005311 PAS fold; Region: PAS_4; pfam08448 338966005312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005313 dimer interface [polypeptide binding]; other site 338966005314 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966005315 putative CheW interface [polypeptide binding]; other site 338966005316 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 338966005317 dimer interface [polypeptide binding]; other site 338966005318 phosphorylation site [posttranslational modification] 338966005319 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 338966005320 ATP binding site [chemical binding]; other site 338966005321 Mg2+ binding site [ion binding]; other site 338966005322 G-X-G motif; other site 338966005323 Response regulator receiver domain; Region: Response_reg; pfam00072 338966005324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005325 active site 338966005326 phosphorylation site [posttranslational modification] 338966005327 intermolecular recognition site; other site 338966005328 dimerization interface [polypeptide binding]; other site 338966005329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005330 putative CheW interface [polypeptide binding]; other site 338966005331 STAS domain; Region: STAS_2; pfam13466 338966005332 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966005333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005334 active site 338966005335 phosphorylation site [posttranslational modification] 338966005336 intermolecular recognition site; other site 338966005337 dimerization interface [polypeptide binding]; other site 338966005338 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 338966005339 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966005340 putative binding surface; other site 338966005341 active site 338966005342 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966005343 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 338966005344 ATP binding site [chemical binding]; other site 338966005345 Mg2+ binding site [ion binding]; other site 338966005346 G-X-G motif; other site 338966005347 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 338966005348 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966005349 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 338966005350 dimerization interface [polypeptide binding]; other site 338966005351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966005352 dimer interface [polypeptide binding]; other site 338966005353 putative CheW interface [polypeptide binding]; other site 338966005354 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 338966005355 putative CheA interaction surface; other site 338966005356 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 338966005357 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 338966005358 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 338966005359 S-adenosylmethionine binding site [chemical binding]; other site 338966005360 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 338966005361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005362 active site 338966005363 phosphorylation site [posttranslational modification] 338966005364 intermolecular recognition site; other site 338966005365 dimerization interface [polypeptide binding]; other site 338966005366 CheB methylesterase; Region: CheB_methylest; pfam01339 338966005367 EAL domain; Region: EAL; pfam00563 338966005368 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 338966005369 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 338966005370 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 338966005371 Ligand binding site; other site 338966005372 oligomer interface; other site 338966005373 CTP synthetase; Validated; Region: pyrG; PRK05380 338966005374 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 338966005375 Catalytic site [active] 338966005376 active site 338966005377 UTP binding site [chemical binding]; other site 338966005378 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 338966005379 active site 338966005380 putative oxyanion hole; other site 338966005381 catalytic triad [active] 338966005382 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 338966005383 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966005384 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966005385 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966005386 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 338966005387 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 338966005388 homodimer interface [polypeptide binding]; other site 338966005389 Walker A motif; other site 338966005390 ATP binding site [chemical binding]; other site 338966005391 hydroxycobalamin binding site [chemical binding]; other site 338966005392 Walker B motif; other site 338966005393 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 338966005394 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966005395 active site 338966005396 NTP binding site [chemical binding]; other site 338966005397 metal binding triad [ion binding]; metal-binding site 338966005398 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338966005399 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 338966005400 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 338966005401 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 338966005402 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 338966005403 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966005404 PAS domain S-box; Region: sensory_box; TIGR00229 338966005405 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 338966005406 putative active site [active] 338966005407 heme pocket [chemical binding]; other site 338966005408 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 338966005409 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 338966005410 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966005411 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338966005412 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 338966005413 NADH dehydrogenase subunit D; Validated; Region: PRK06075 338966005414 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 338966005415 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 338966005416 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 338966005417 putative dimer interface [polypeptide binding]; other site 338966005418 [2Fe-2S] cluster binding site [ion binding]; other site 338966005419 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966005420 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338966005421 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 338966005422 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 338966005423 catalytic loop [active] 338966005424 iron binding site [ion binding]; other site 338966005425 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338966005426 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 338966005427 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 338966005428 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 338966005429 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 338966005430 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966005431 4Fe-4S binding domain; Region: Fer4; pfam00037 338966005432 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 338966005433 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966005434 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966005435 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966005436 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966005437 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966005438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966005439 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 338966005440 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966005441 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 338966005442 putative catalytic site [active] 338966005443 putative phosphate binding site [ion binding]; other site 338966005444 active site 338966005445 metal binding site A [ion binding]; metal-binding site 338966005446 DNA binding site [nucleotide binding] 338966005447 putative AP binding site [nucleotide binding]; other site 338966005448 putative metal binding site B [ion binding]; other site 338966005449 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966005450 Predicted permeases [General function prediction only]; Region: COG0795 338966005451 Predicted permeases [General function prediction only]; Region: COG0795 338966005452 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966005453 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 338966005454 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 338966005455 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 338966005456 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 338966005457 active site 338966005458 ADP/pyrophosphate binding site [chemical binding]; other site 338966005459 dimerization interface [polypeptide binding]; other site 338966005460 allosteric effector site; other site 338966005461 fructose-1,6-bisphosphate binding site; other site 338966005462 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 338966005463 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 338966005464 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 338966005465 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966005466 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005467 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966005468 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 338966005469 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 338966005470 Ligand Binding Site [chemical binding]; other site 338966005471 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 338966005472 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 338966005473 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 338966005474 dimerization interface [polypeptide binding]; other site 338966005475 active site 338966005476 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 338966005477 enolase; Provisional; Region: eno; PRK00077 338966005478 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 338966005479 dimer interface [polypeptide binding]; other site 338966005480 metal binding site [ion binding]; metal-binding site 338966005481 substrate binding pocket [chemical binding]; other site 338966005482 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966005483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005484 active site 338966005485 phosphorylation site [posttranslational modification] 338966005486 intermolecular recognition site; other site 338966005487 dimerization interface [polypeptide binding]; other site 338966005488 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 338966005489 Walker A motif; other site 338966005490 ATP binding site [chemical binding]; other site 338966005491 Walker B motif; other site 338966005492 arginine finger; other site 338966005493 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966005494 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966005495 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338966005496 Walker A/P-loop; other site 338966005497 ATP binding site [chemical binding]; other site 338966005498 Q-loop/lid; other site 338966005499 ABC transporter signature motif; other site 338966005500 Walker B; other site 338966005501 D-loop; other site 338966005502 H-loop/switch region; other site 338966005503 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 338966005504 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 338966005505 active site 338966005506 HIGH motif; other site 338966005507 KMSKS motif; other site 338966005508 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 338966005509 tRNA binding surface [nucleotide binding]; other site 338966005510 anticodon binding site; other site 338966005511 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 338966005512 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 338966005513 DNA polymerase III subunit delta'; Validated; Region: PRK08485 338966005514 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 338966005515 thymidylate kinase; Validated; Region: tmk; PRK00698 338966005516 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 338966005517 TMP-binding site; other site 338966005518 ATP-binding site [chemical binding]; other site 338966005519 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 338966005520 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 338966005521 dimer interface [polypeptide binding]; other site 338966005522 PYR/PP interface [polypeptide binding]; other site 338966005523 TPP binding site [chemical binding]; other site 338966005524 substrate binding site [chemical binding]; other site 338966005525 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 338966005526 TPP-binding site; other site 338966005527 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 338966005528 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 338966005529 active site clefts [active] 338966005530 zinc binding site [ion binding]; other site 338966005531 dimer interface [polypeptide binding]; other site 338966005532 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966005533 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 338966005534 acyl-activating enzyme (AAE) consensus motif; other site 338966005535 AMP binding site [chemical binding]; other site 338966005536 active site 338966005537 CoA binding site [chemical binding]; other site 338966005538 ACT domain-containing protein [General function prediction only]; Region: COG4747 338966005539 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 338966005540 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 338966005541 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 338966005542 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 338966005543 putative ligand binding site [chemical binding]; other site 338966005544 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 338966005545 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 338966005546 TM-ABC transporter signature motif; other site 338966005547 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 338966005548 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 338966005549 TM-ABC transporter signature motif; other site 338966005550 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 338966005551 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 338966005552 Walker A/P-loop; other site 338966005553 ATP binding site [chemical binding]; other site 338966005554 Q-loop/lid; other site 338966005555 ABC transporter signature motif; other site 338966005556 Walker B; other site 338966005557 D-loop; other site 338966005558 H-loop/switch region; other site 338966005559 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 338966005560 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 338966005561 Walker A/P-loop; other site 338966005562 ATP binding site [chemical binding]; other site 338966005563 Q-loop/lid; other site 338966005564 ABC transporter signature motif; other site 338966005565 Walker B; other site 338966005566 D-loop; other site 338966005567 H-loop/switch region; other site 338966005568 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...; Region: OMP_decarboxylase_like; cd04725 338966005569 active site 338966005570 dimer interface [polypeptide binding]; other site 338966005571 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 338966005572 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 338966005573 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 338966005574 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966005575 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 338966005576 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966005577 PilZ domain; Region: PilZ; pfam07238 338966005578 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 338966005579 Nitrogen regulatory protein P-II; Region: P-II; smart00938 338966005580 glutamine synthetase, type I; Region: GlnA; TIGR00653 338966005581 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 338966005582 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338966005583 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 338966005584 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 338966005585 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 338966005586 Conserved TM helix; Region: TM_helix; pfam05552 338966005587 Conserved TM helix; Region: TM_helix; pfam05552 338966005588 Conserved TM helix; Region: TM_helix; pfam05552 338966005589 Conserved TM helix; Region: TM_helix; pfam05552 338966005590 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 338966005591 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 338966005592 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 338966005593 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 338966005594 RNA binding site [nucleotide binding]; other site 338966005595 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 338966005596 Peptidase family M50; Region: Peptidase_M50; pfam02163 338966005597 active site 338966005598 putative substrate binding region [chemical binding]; other site 338966005599 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 338966005600 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 338966005601 active site 338966005602 HIGH motif; other site 338966005603 dimer interface [polypeptide binding]; other site 338966005604 KMSKS motif; other site 338966005605 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 338966005606 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 338966005607 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 338966005608 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 338966005609 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 338966005610 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 338966005611 putative ligand binding pocket/active site [active] 338966005612 putative metal binding site [ion binding]; other site 338966005613 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 338966005614 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 338966005615 substrate binding site [chemical binding]; other site 338966005616 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 338966005617 substrate binding site [chemical binding]; other site 338966005618 ligand binding site [chemical binding]; other site 338966005619 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 338966005620 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 338966005621 Phosphoglycerate kinase; Region: PGK; pfam00162 338966005622 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 338966005623 substrate binding site [chemical binding]; other site 338966005624 hinge regions; other site 338966005625 ADP binding site [chemical binding]; other site 338966005626 catalytic site [active] 338966005627 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 338966005628 triosephosphate isomerase; Provisional; Region: PRK14567 338966005629 substrate binding site [chemical binding]; other site 338966005630 dimer interface [polypeptide binding]; other site 338966005631 catalytic triad [active] 338966005632 Preprotein translocase SecG subunit; Region: SecG; pfam03840 338966005633 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 338966005634 Ferritin-like domain; Region: Ferritin; pfam00210 338966005635 ferroxidase diiron center [ion binding]; other site 338966005636 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 338966005637 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 338966005638 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 338966005639 ligand binding site [chemical binding]; other site 338966005640 NAD binding site [chemical binding]; other site 338966005641 dimerization interface [polypeptide binding]; other site 338966005642 catalytic site [active] 338966005643 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 338966005644 putative L-serine binding site [chemical binding]; other site 338966005645 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 338966005646 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 338966005647 Pseudouridine synthase, TruD family; Region: PseudoU_synth_ScPUS7; cd02576 338966005648 probable active site [active] 338966005649 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 338966005650 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338966005651 active site 338966005652 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 338966005653 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 338966005654 FeS/SAM binding site; other site 338966005655 Protein of unknown function (DUF503); Region: DUF503; pfam04456 338966005656 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 338966005657 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 338966005658 putative dimer interface [polypeptide binding]; other site 338966005659 putative anticodon binding site; other site 338966005660 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 338966005661 homodimer interface [polypeptide binding]; other site 338966005662 motif 1; other site 338966005663 motif 2; other site 338966005664 active site 338966005665 motif 3; other site 338966005666 selenophosphate synthetase; Provisional; Region: PRK00943 338966005667 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 338966005668 dimerization interface [polypeptide binding]; other site 338966005669 putative ATP binding site [chemical binding]; other site 338966005670 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 338966005671 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 338966005672 CPxP motif; other site 338966005673 DsrE/DsrF-like family; Region: DrsE; pfam02635 338966005674 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 338966005675 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 338966005676 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 338966005677 NAD(P) binding site [chemical binding]; other site 338966005678 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 338966005679 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 338966005680 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 338966005681 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 338966005682 CoA binding domain; Region: CoA_binding; smart00881 338966005683 CoA-ligase; Region: Ligase_CoA; pfam00549 338966005684 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 338966005685 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 338966005686 CoA-ligase; Region: Ligase_CoA; pfam00549 338966005687 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 338966005688 Glycoprotease family; Region: Peptidase_M22; pfam00814 338966005689 PrkA AAA domain; Region: AAA_PrkA; smart00763 338966005690 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 338966005691 hypothetical protein; Provisional; Region: PRK05325 338966005692 SpoVR like protein; Region: SpoVR; pfam04293 338966005693 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 338966005694 PrkA AAA domain; Region: AAA_PrkA; smart00763 338966005695 YtxH-like protein; Region: YtxH; pfam12732 338966005696 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; cl17915 338966005697 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 338966005698 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 338966005699 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966005700 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 338966005701 FeS/SAM binding site; other site 338966005702 TRAM domain; Region: TRAM; pfam01938 338966005703 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 338966005704 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966005705 active site 338966005706 HIGH motif; other site 338966005707 nucleotide binding site [chemical binding]; other site 338966005708 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 338966005709 KMSKS motif; other site 338966005710 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 338966005711 GTPase Era; Reviewed; Region: era; PRK00089 338966005712 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 338966005713 G1 box; other site 338966005714 GTP/Mg2+ binding site [chemical binding]; other site 338966005715 Switch I region; other site 338966005716 G2 box; other site 338966005717 Switch II region; other site 338966005718 G3 box; other site 338966005719 G4 box; other site 338966005720 G5 box; other site 338966005721 KH domain; Region: KH_2; pfam07650 338966005722 GTP-binding protein Der; Reviewed; Region: PRK00093 338966005723 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 338966005724 G1 box; other site 338966005725 GTP/Mg2+ binding site [chemical binding]; other site 338966005726 Switch I region; other site 338966005727 G2 box; other site 338966005728 Switch II region; other site 338966005729 G3 box; other site 338966005730 G4 box; other site 338966005731 G5 box; other site 338966005732 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 338966005733 G1 box; other site 338966005734 GTP/Mg2+ binding site [chemical binding]; other site 338966005735 Switch I region; other site 338966005736 G2 box; other site 338966005737 G3 box; other site 338966005738 Switch II region; other site 338966005739 G4 box; other site 338966005740 G5 box; other site 338966005741 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966005742 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966005743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966005744 active site 338966005745 phosphorylation site [posttranslational modification] 338966005746 intermolecular recognition site; other site 338966005747 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 338966005748 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966005749 putative binding surface; other site 338966005750 active site 338966005751 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966005752 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 338966005753 ATP binding site [chemical binding]; other site 338966005754 Mg2+ binding site [ion binding]; other site 338966005755 G-X-G motif; other site 338966005756 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 338966005757 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 338966005758 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 338966005759 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 338966005760 HIGH motif; other site 338966005761 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 338966005762 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 338966005763 active site 338966005764 KMSKS motif; other site 338966005765 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 338966005766 tRNA binding surface [nucleotide binding]; other site 338966005767 Lipopolysaccharide-assembly; Region: LptE; pfam04390 338966005768 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 338966005769 DNA polymerase III, delta subunit; Region: holA; TIGR01128 338966005770 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966005771 Chorismate mutase type II; Region: CM_2; pfam01817 338966005772 L-aspartate oxidase; Provisional; Region: PRK09077 338966005773 L-aspartate oxidase; Provisional; Region: PRK06175 338966005774 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338966005775 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 338966005776 Clp amino terminal domain; Region: Clp_N; pfam02861 338966005777 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 338966005778 Walker A motif; other site 338966005779 ATP binding site [chemical binding]; other site 338966005780 Walker B motif; other site 338966005781 arginine finger; other site 338966005782 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 338966005783 Walker A motif; other site 338966005784 ATP binding site [chemical binding]; other site 338966005785 Walker B motif; other site 338966005786 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 338966005787 4-alpha-glucanotransferase; Provisional; Region: PRK14508 338966005788 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 338966005789 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 338966005790 putative phosphate acyltransferase; Provisional; Region: PRK05331 338966005791 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 338966005792 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966005793 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 338966005794 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 338966005795 NAD(P) binding site [chemical binding]; other site 338966005796 homotetramer interface [polypeptide binding]; other site 338966005797 homodimer interface [polypeptide binding]; other site 338966005798 active site 338966005799 acyl carrier protein; Provisional; Region: acpP; PRK00982 338966005800 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 338966005801 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 338966005802 dimer interface [polypeptide binding]; other site 338966005803 active site 338966005804 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 338966005805 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 338966005806 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 338966005807 dimer interface [polypeptide binding]; other site 338966005808 active site 338966005809 glycine-pyridoxal phosphate binding site [chemical binding]; other site 338966005810 folate binding site [chemical binding]; other site 338966005811 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 338966005812 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 338966005813 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 338966005814 motif II; other site 338966005815 Predicted integral membrane protein [Function unknown]; Region: COG5652 338966005816 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 338966005817 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 338966005818 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 338966005819 prolyl-tRNA synthetase; Provisional; Region: PRK09194 338966005820 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...; Region: ProRS_core_prok; cd00779 338966005821 dimer interface [polypeptide binding]; other site 338966005822 motif 1; other site 338966005823 active site 338966005824 motif 2; other site 338966005825 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 338966005826 putative deacylase active site [active] 338966005827 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...; Region: class_II_aaRS-like_core; cl00268 338966005828 active site 338966005829 motif 3; other site 338966005830 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 338966005831 anticodon binding site; other site 338966005832 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 338966005833 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966005834 acyl-activating enzyme (AAE) consensus motif; other site 338966005835 AMP binding site [chemical binding]; other site 338966005836 active site 338966005837 CoA binding site [chemical binding]; other site 338966005838 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 338966005839 Replication initiation factor; Region: Rep_trans; pfam02486 338966005840 Zonular occludens toxin (Zot); Region: Zot; cl17485 338966005841 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 338966005842 rRNA binding site [nucleotide binding]; other site 338966005843 predicted 30S ribosome binding site; other site 338966005844 elongation factor P; Validated; Region: PRK00529 338966005845 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 338966005846 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 338966005847 RNA binding site [nucleotide binding]; other site 338966005848 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 338966005849 RNA binding site [nucleotide binding]; other site 338966005850 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...; Region: class_II_aaRS-like_core; cl00268 338966005851 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 338966005852 motif 1; other site 338966005853 dimer interface [polypeptide binding]; other site 338966005854 active site 338966005855 motif 2; other site 338966005856 motif 3; other site 338966005857 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 338966005858 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966005859 FeS/SAM binding site; other site 338966005860 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 338966005861 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966005862 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 338966005863 Walker A motif; other site 338966005864 ATP binding site [chemical binding]; other site 338966005865 Walker B motif; other site 338966005866 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 338966005867 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 338966005868 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966005869 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...; Region: LT_GEWL; cd00254 338966005870 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966005871 catalytic residue [active] 338966005872 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966005873 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966005874 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 338966005875 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 338966005876 dimerization interface [polypeptide binding]; other site 338966005877 putative ATP binding site [chemical binding]; other site 338966005878 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 338966005879 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 338966005880 active site 338966005881 substrate binding site [chemical binding]; other site 338966005882 cosubstrate binding site; other site 338966005883 catalytic site [active] 338966005884 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 338966005885 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 338966005886 AMP binding site [chemical binding]; other site 338966005887 metal binding site [ion binding]; metal-binding site 338966005888 active site 338966005889 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966005890 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 338966005891 FeS/SAM binding site; other site 338966005892 ribonuclease III; Reviewed; Region: rnc; PRK00102 338966005893 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 338966005894 dimerization interface [polypeptide binding]; other site 338966005895 active site 338966005896 metal binding site [ion binding]; metal-binding site 338966005897 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 338966005898 dsRNA binding site [nucleotide binding]; other site 338966005899 exopolyphosphatase; Region: exo_poly_only; TIGR03706 338966005900 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 338966005901 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 338966005902 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 338966005903 PhoU domain; Region: PhoU; pfam01895 338966005904 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 338966005905 IHF dimer interface [polypeptide binding]; other site 338966005906 IHF - DNA interface [nucleotide binding]; other site 338966005907 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 338966005908 binding surface 338966005909 TPR motif; other site 338966005910 TRAM domain; Region: TRAM; pfam01938 338966005911 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 338966005912 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 338966005913 S-adenosylmethionine binding site [chemical binding]; other site 338966005914 Creatinine amidohydrolase; Region: Creatininase; pfam02633 338966005915 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 338966005916 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 338966005917 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 338966005918 FeS/SAM binding site; other site 338966005919 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 338966005920 active site 338966005921 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 338966005922 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 338966005923 homodimer interface [polypeptide binding]; other site 338966005924 substrate-cofactor binding pocket; other site 338966005925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966005926 catalytic residue [active] 338966005927 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 338966005928 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 338966005929 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 338966005930 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 338966005931 PhnA protein; Region: PhnA; pfam03831 338966005932 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 338966005933 Na2 binding site [ion binding]; other site 338966005934 putative substrate binding site 1 [chemical binding]; other site 338966005935 Na binding site 1 [ion binding]; other site 338966005936 putative substrate binding site 2 [chemical binding]; other site 338966005937 Protein of unknown function (DUF456); Region: DUF456; pfam04306 338966005938 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 338966005939 Cation efflux family; Region: Cation_efflux; pfam01545 338966005940 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 338966005941 DHH family; Region: DHH; pfam01368 338966005942 DHHA1 domain; Region: DHHA1; pfam02272 338966005943 TPR repeat; Region: TPR_11; pfam13414 338966005944 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 338966005945 binding surface 338966005946 TPR motif; other site 338966005947 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 338966005948 Protein export membrane protein; Region: SecD_SecF; pfam02355 338966005949 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 338966005950 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 338966005951 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 338966005952 Preprotein translocase subunit; Region: YajC; pfam02699 338966005953 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 338966005954 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 338966005955 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 338966005956 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 338966005957 Stage II sporulation protein; Region: SpoIID; pfam08486 338966005958 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 338966005959 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 338966005960 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 338966005961 PDGLE domain; Region: PDGLE; pfam13190 338966005962 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 338966005963 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 338966005964 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 338966005965 Walker A/P-loop; other site 338966005966 ATP binding site [chemical binding]; other site 338966005967 Q-loop/lid; other site 338966005968 ABC transporter signature motif; other site 338966005969 Walker B; other site 338966005970 D-loop; other site 338966005971 H-loop/switch region; other site 338966005972 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 338966005973 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 338966005974 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 338966005975 putative ligand binding site [chemical binding]; other site 338966005976 putative NAD binding site [chemical binding]; other site 338966005977 catalytic site [active] 338966005978 phage tail protein domain; Region: tail_TIGR02242 338966005979 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 338966005980 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 338966005981 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 338966005982 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 338966005983 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 338966005984 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 338966005985 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 338966005986 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966005987 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 338966005988 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966005989 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 338966005990 Walker A motif; other site 338966005991 ATP binding site [chemical binding]; other site 338966005992 Walker B motif; other site 338966005993 arginine finger; other site 338966005994 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 338966005995 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 338966005996 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 338966005997 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 338966005998 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 338966005999 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966006000 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 338966006001 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 338966006002 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 338966006003 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 338966006004 homodimer interface [polypeptide binding]; other site 338966006005 substrate-cofactor binding pocket; other site 338966006006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006007 catalytic residue [active] 338966006008 cystathionine beta-lyase; Provisional; Region: PRK08064 338966006009 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 338966006010 homodimer interface [polypeptide binding]; other site 338966006011 substrate-cofactor binding pocket; other site 338966006012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006013 catalytic residue [active] 338966006014 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 338966006015 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 338966006016 dimer interface [polypeptide binding]; other site 338966006017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006018 catalytic residue [active] 338966006019 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 338966006020 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 338966006021 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; cl17196 338966006022 ATP binding site [chemical binding]; other site 338966006023 substrate interface [chemical binding]; other site 338966006024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966006025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966006026 metal binding site [ion binding]; metal-binding site 338966006027 active site 338966006028 I-site; other site 338966006029 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338966006030 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 338966006031 ligand binding site [chemical binding]; other site 338966006032 flexible hinge region; other site 338966006033 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 338966006034 non-specific DNA interactions [nucleotide binding]; other site 338966006035 DNA binding site [nucleotide binding] 338966006036 sequence specific DNA binding site [nucleotide binding]; other site 338966006037 putative cAMP binding site [chemical binding]; other site 338966006038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966006039 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966006040 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966006041 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 338966006042 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 338966006043 Ligand Binding Site [chemical binding]; other site 338966006044 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 338966006045 Sel1-like repeats; Region: SEL1; smart00671 338966006046 putative transposase OrfB; Reviewed; Region: PHA02517 338966006047 Integrase core domain; Region: rve; pfam00665 338966006048 Integrase core domain; Region: rve_3; pfam13683 338966006049 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 338966006050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338966006051 Transposase; Region: HTH_Tnp_1; cl17663 338966006052 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966006053 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966006054 active site 338966006055 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 338966006056 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 338966006057 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 338966006058 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; cl17251 338966006059 ATP binding site [chemical binding]; other site 338966006060 DEAD_2; Region: DEAD_2; pfam06733 338966006061 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 338966006062 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966006063 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 338966006064 binding surface 338966006065 TPR motif; other site 338966006066 Haemolytic domain; Region: Haemolytic; pfam01809 338966006067 Short C-terminal domain; Region: SHOCT; pfam09851 338966006068 pyruvate kinase; Provisional; Region: PRK05826 338966006069 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; cl17342 338966006070 domain interfaces; other site 338966006071 active site 338966006072 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 338966006073 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 338966006074 active site 338966006075 intersubunit interface [polypeptide binding]; other site 338966006076 zinc binding site [ion binding]; other site 338966006077 Na+ binding site [ion binding]; other site 338966006078 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 338966006079 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 338966006080 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 338966006081 ATP binding site [chemical binding]; other site 338966006082 putative Mg++ binding site [ion binding]; other site 338966006083 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 338966006084 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 338966006085 Fic family protein [Function unknown]; Region: COG3177 338966006086 Fic/DOC family; Region: Fic; pfam02661 338966006087 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 338966006088 HsdM N-terminal domain; Region: HsdM_N; pfam12161 338966006089 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 338966006090 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338966006091 integrase; Provisional; Region: PRK09692 338966006092 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 338966006093 active site 338966006094 Int/Topo IB signature motif; other site 338966006095 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 338966006096 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 338966006097 putative FMN binding site [chemical binding]; other site 338966006098 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 338966006099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966006100 NAD(P) binding site [chemical binding]; other site 338966006101 active site 338966006102 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 338966006103 putative FMN binding site [chemical binding]; other site 338966006104 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 338966006105 AAA domain; Region: AAA_30; pfam13604 338966006106 Family description; Region: UvrD_C_2; pfam13538 338966006107 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 338966006108 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 338966006109 SEC-C motif; Region: SEC-C; pfam02810 338966006110 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 338966006111 Isochorismatase family; Region: Isochorismatase; pfam00857 338966006112 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 338966006113 catalytic triad [active] 338966006114 conserved cis-peptide bond; other site 338966006115 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 338966006116 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338966006117 OB-fold nucleic acid binding domain; Region: tRNA_anti_2; pfam13742 338966006118 generic binding surface II; other site 338966006119 generic binding surface I; other site 338966006120 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 338966006121 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966006122 active site 338966006123 substrate binding site [chemical binding]; other site 338966006124 Mg2+ binding site [ion binding]; other site 338966006125 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 338966006126 IHF dimer interface [polypeptide binding]; other site 338966006127 IHF - DNA interface [nucleotide binding]; other site 338966006128 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 338966006129 Part of AAA domain; Region: AAA_19; pfam13245 338966006130 Family description; Region: UvrD_C_2; pfam13538 338966006131 AAA ATPase domain; Region: AAA_15; pfam13175 338966006132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966006133 Walker A/P-loop; other site 338966006134 ATP binding site [chemical binding]; other site 338966006135 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 338966006136 putative active site [active] 338966006137 putative metal-binding site [ion binding]; other site 338966006138 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 338966006139 Protein of unknown function (DUF499); Region: DUF499; pfam04465 338966006140 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 338966006141 ATP binding site [chemical binding]; other site 338966006142 putative Mg++ binding site [ion binding]; other site 338966006143 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 338966006144 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 338966006145 nucleotide binding region [chemical binding]; other site 338966006146 ATP-binding site [chemical binding]; other site 338966006147 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 338966006148 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 338966006149 nucleotide binding site [chemical binding]; other site 338966006150 SulA interaction site; other site 338966006151 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 338966006152 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966006153 putative active site [active] 338966006154 heme pocket [chemical binding]; other site 338966006155 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 338966006156 dimer interface [polypeptide binding]; other site 338966006157 phosphorylation site [posttranslational modification] 338966006158 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 338966006159 ATP binding site [chemical binding]; other site 338966006160 Mg2+ binding site [ion binding]; other site 338966006161 G-X-G motif; other site 338966006162 Response regulator receiver domain; Region: Response_reg; pfam00072 338966006163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006164 active site 338966006165 phosphorylation site [posttranslational modification] 338966006166 intermolecular recognition site; other site 338966006167 dimerization interface [polypeptide binding]; other site 338966006168 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 338966006169 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 338966006170 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966006171 Walker A motif; other site 338966006172 ATP binding site [chemical binding]; other site 338966006173 Walker B motif; other site 338966006174 arginine finger; other site 338966006175 RecT family; Region: RecT; pfam03837 338966006176 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 338966006177 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966006178 MPN+ (JAMM) motif; other site 338966006179 Zinc-binding site [ion binding]; other site 338966006180 Methyltransferase domain; Region: Methyltransf_27; pfam13708 338966006181 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 338966006182 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 338966006183 Walker A motif; other site 338966006184 ATP binding site [chemical binding]; other site 338966006185 Walker B motif; other site 338966006186 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 338966006187 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 338966006188 IHF dimer interface [polypeptide binding]; other site 338966006189 IHF - DNA interface [nucleotide binding]; other site 338966006190 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 338966006191 metal ion-dependent adhesion site (MIDAS); other site 338966006192 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 338966006193 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 338966006194 IHF dimer interface [polypeptide binding]; other site 338966006195 IHF - DNA interface [nucleotide binding]; other site 338966006196 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 338966006197 LexA repressor; Validated; Region: PRK00215 338966006198 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 338966006199 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 338966006200 Catalytic site [active] 338966006201 DNA polymerase IV; Reviewed; Region: PRK03103 338966006202 DNA polymerase IV; Reviewed; Region: PRK03103 338966006203 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 338966006204 active site 338966006205 DNA binding site [nucleotide binding] 338966006206 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 338966006207 GNS1/SUR4 family; Region: ELO; cl03120 338966006208 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 338966006209 non-specific DNA binding site [nucleotide binding]; other site 338966006210 salt bridge; other site 338966006211 sequence-specific DNA binding site [nucleotide binding]; other site 338966006212 ParB-like nuclease domain; Region: ParBc; pfam02195 338966006213 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 338966006214 PAS domain S-box; Region: sensory_box; TIGR00229 338966006215 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 338966006216 putative active site [active] 338966006217 heme pocket [chemical binding]; other site 338966006218 PAS fold; Region: PAS_3; pfam08447 338966006219 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 338966006220 PAS fold; Region: PAS_3; pfam08447 338966006221 putative active site [active] 338966006222 heme pocket [chemical binding]; other site 338966006223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966006224 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 338966006225 dimer interface [polypeptide binding]; other site 338966006226 phosphorylation site [posttranslational modification] 338966006227 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 338966006228 ATP binding site [chemical binding]; other site 338966006229 Mg2+ binding site [ion binding]; other site 338966006230 G-X-G motif; other site 338966006231 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966006232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006233 active site 338966006234 phosphorylation site [posttranslational modification] 338966006235 intermolecular recognition site; other site 338966006236 dimerization interface [polypeptide binding]; other site 338966006237 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 338966006238 IHF dimer interface [polypeptide binding]; other site 338966006239 IHF - DNA interface [nucleotide binding]; other site 338966006240 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 338966006241 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 338966006242 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 338966006243 multiple promoter invertase; Provisional; Region: mpi; PRK13413 338966006244 catalytic residues [active] 338966006245 catalytic nucleophile [active] 338966006246 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966006247 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966006248 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966006249 Synaptic Site I dimer interface [polypeptide binding]; other site 338966006250 DNA binding site [nucleotide binding] 338966006251 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 338966006252 DNA-binding interface [nucleotide binding]; DNA binding site 338966006253 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966006254 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966006255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966006256 Walker A/P-loop; other site 338966006257 ATP binding site [chemical binding]; other site 338966006258 Q-loop/lid; other site 338966006259 ABC transporter signature motif; other site 338966006260 Walker B; other site 338966006261 D-loop; other site 338966006262 H-loop/switch region; other site 338966006263 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006264 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966006265 FtsX-like permease family; Region: FtsX; pfam02687 338966006266 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966006267 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966006268 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966006269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966006270 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966006271 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 338966006272 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 338966006273 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 338966006274 putative catalytic cysteine [active] 338966006275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 338966006276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338966006277 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 338966006278 putative dimerization interface [polypeptide binding]; other site 338966006279 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 338966006280 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 338966006281 substrate binding site [chemical binding]; other site 338966006282 ligand binding site [chemical binding]; other site 338966006283 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 338966006284 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 338966006285 substrate binding site [chemical binding]; other site 338966006286 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966006287 trimerization site [polypeptide binding]; other site 338966006288 active site 338966006289 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 338966006290 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 338966006291 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 338966006292 dimerization interface [polypeptide binding]; other site 338966006293 putative DNA binding site [nucleotide binding]; other site 338966006294 putative Zn2+ binding site [ion binding]; other site 338966006295 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 338966006296 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 338966006297 tetramer interface [polypeptide binding]; other site 338966006298 heme binding pocket [chemical binding]; other site 338966006299 NADPH binding site [chemical binding]; other site 338966006300 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 338966006301 dinuclear metal binding motif [ion binding]; other site 338966006302 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 338966006303 Sodium Bile acid symporter family; Region: SBF; cl17470 338966006304 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 338966006305 Methyltransferase domain; Region: Methyltransf_23; pfam13489 338966006306 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 338966006307 S-adenosylmethionine binding site [chemical binding]; other site 338966006308 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 338966006309 active site residue [active] 338966006310 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 338966006311 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966006312 FeS/SAM binding site; other site 338966006313 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966006314 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 338966006315 MarR family; Region: MarR_2; cl17246 338966006316 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 338966006317 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966006318 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 338966006319 S-adenosylmethionine binding site [chemical binding]; other site 338966006320 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 338966006321 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 338966006322 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 338966006323 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 338966006324 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966006325 trimerization site [polypeptide binding]; other site 338966006326 active site 338966006327 Uncharacterized conserved protein [Function unknown]; Region: COG2014 338966006328 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 338966006329 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966006330 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 338966006331 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 338966006332 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 338966006333 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 338966006334 P loop nucleotide binding; other site 338966006335 switch II; other site 338966006336 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 338966006337 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 338966006338 CoenzymeA binding site [chemical binding]; other site 338966006339 subunit interaction site [polypeptide binding]; other site 338966006340 PHB binding site; other site 338966006341 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 338966006342 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 338966006343 switch II; other site 338966006344 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 338966006345 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 338966006346 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966006347 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338966006348 Walker A/P-loop; other site 338966006349 ATP binding site [chemical binding]; other site 338966006350 Q-loop/lid; other site 338966006351 ABC transporter signature motif; other site 338966006352 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 338966006353 HSP70 interaction site [polypeptide binding]; other site 338966006354 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 338966006355 ZIP Zinc transporter; Region: Zip; pfam02535 338966006356 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 338966006357 Cation efflux family; Region: Cation_efflux; pfam01545 338966006358 Uncharacterized conserved protein [Function unknown]; Region: COG1433 338966006359 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 338966006360 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 338966006361 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 338966006362 Domain of unknown function (DUF364); Region: DUF364; pfam04016 338966006363 Rubrerythrin [Energy production and conversion]; Region: COG1592 338966006364 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338966006365 binuclear metal center [ion binding]; other site 338966006366 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 338966006367 iron binding site [ion binding]; other site 338966006368 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 338966006369 metal binding site 2 [ion binding]; metal-binding site 338966006370 putative DNA binding helix; other site 338966006371 metal binding site 1 [ion binding]; metal-binding site 338966006372 dimer interface [polypeptide binding]; other site 338966006373 structural Zn2+ binding site [ion binding]; other site 338966006374 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 338966006375 homodimer interaction site [polypeptide binding]; other site 338966006376 cofactor binding site; other site 338966006377 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 338966006378 MoaE homodimer interface [polypeptide binding]; other site 338966006379 active site residues [active] 338966006380 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 338966006381 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 338966006382 ligand binding site [chemical binding]; other site 338966006383 Cache domain; Region: Cache_1; pfam02743 338966006384 HAMP domain; Region: HAMP; pfam00672 338966006385 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 338966006386 PAS domain; Region: PAS_9; pfam13426 338966006387 putative active site [active] 338966006388 heme pocket [chemical binding]; other site 338966006389 PAS domain S-box; Region: sensory_box; TIGR00229 338966006390 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 338966006391 putative active site [active] 338966006392 heme pocket [chemical binding]; other site 338966006393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966006394 Histidine kinase; Region: HisKA_2; pfam07568 338966006395 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 338966006396 ATP binding site [chemical binding]; other site 338966006397 Mg2+ binding site [ion binding]; other site 338966006398 G-X-G motif; other site 338966006399 4Fe-4S binding domain; Region: Fer4_5; pfam12801 338966006400 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 338966006401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 338966006402 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966006403 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 338966006404 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 338966006405 active site residue [active] 338966006406 PAS domain; Region: PAS_10; pfam13596 338966006407 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 338966006408 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 338966006409 PAS domain; Region: PAS_9; pfam13426 338966006410 putative active site [active] 338966006411 heme pocket [chemical binding]; other site 338966006412 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 338966006413 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966006414 Walker A motif; other site 338966006415 ATP binding site [chemical binding]; other site 338966006416 Walker B motif; other site 338966006417 arginine finger; other site 338966006418 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966006419 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 338966006420 Sulphur transport; Region: Sulf_transp; pfam04143 338966006421 TIP49 C-terminus; Region: TIP49; pfam06068 338966006422 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 338966006423 nucleoside/Zn binding site; other site 338966006424 dimer interface [polypeptide binding]; other site 338966006425 catalytic motif [active] 338966006426 YCII-related domain; Region: YCII; cl00999 338966006427 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 338966006428 dimerization interface [polypeptide binding]; other site 338966006429 putative DNA binding site [nucleotide binding]; other site 338966006430 putative Zn2+ binding site [ion binding]; other site 338966006431 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966006432 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966006433 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966006434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966006435 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966006436 Walker A/P-loop; other site 338966006437 ATP binding site [chemical binding]; other site 338966006438 Q-loop/lid; other site 338966006439 ABC transporter signature motif; other site 338966006440 Walker B; other site 338966006441 D-loop; other site 338966006442 H-loop/switch region; other site 338966006443 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338966006444 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006445 FtsX-like permease family; Region: FtsX; pfam02687 338966006446 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 338966006447 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966006448 FtsX-like permease family; Region: FtsX; pfam02687 338966006449 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966006450 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 338966006451 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 338966006452 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 338966006453 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 338966006454 substrate binding pocket [chemical binding]; other site 338966006455 membrane-bound complex binding site; other site 338966006456 hinge residues; other site 338966006457 GAF domain; Region: GAF_2; pfam13185 338966006458 PAS domain S-box; Region: sensory_box; TIGR00229 338966006459 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 338966006460 putative active site [active] 338966006461 heme pocket [chemical binding]; other site 338966006462 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966006463 Sensory domain found in PocR; Region: PocR; pfam10114 338966006464 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 338966006465 PAS fold; Region: PAS_3; pfam08447 338966006466 putative active site [active] 338966006467 heme pocket [chemical binding]; other site 338966006468 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966006469 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 338966006470 ATP binding site [chemical binding]; other site 338966006471 Mg2+ binding site [ion binding]; other site 338966006472 G-X-G motif; other site 338966006473 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 338966006474 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 338966006475 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966006476 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 338966006477 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 338966006478 active site 338966006479 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966006480 substrate binding site [chemical binding]; other site 338966006481 catalytic residues [active] 338966006482 dimer interface [polypeptide binding]; other site 338966006483 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 338966006484 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 338966006485 NAD binding site [chemical binding]; other site 338966006486 ligand binding site [chemical binding]; other site 338966006487 catalytic site [active] 338966006488 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 338966006489 putative FMN binding site [chemical binding]; other site 338966006490 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 338966006491 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 338966006492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966006493 homodimer interface [polypeptide binding]; other site 338966006494 catalytic residue [active] 338966006495 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 338966006496 EamA-like transporter family; Region: EamA; pfam00892 338966006497 EamA-like transporter family; Region: EamA; pfam00892 338966006498 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 338966006499 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 338966006500 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 338966006501 dimer interface [polypeptide binding]; other site 338966006502 active site 338966006503 metal binding site [ion binding]; metal-binding site 338966006504 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966006505 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006506 active site 338966006507 phosphorylation site [posttranslational modification] 338966006508 intermolecular recognition site; other site 338966006509 dimerization interface [polypeptide binding]; other site 338966006510 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 338966006511 Walker A motif; other site 338966006512 ATP binding site [chemical binding]; other site 338966006513 Walker B motif; other site 338966006514 arginine finger; other site 338966006515 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966006516 PAS fold; Region: PAS_4; pfam08448 338966006517 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 338966006518 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 338966006519 putative active site [active] 338966006520 heme pocket [chemical binding]; other site 338966006521 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 338966006522 putative active site [active] 338966006523 heme pocket [chemical binding]; other site 338966006524 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 338966006525 ATP binding site [chemical binding]; other site 338966006526 Mg2+ binding site [ion binding]; other site 338966006527 G-X-G motif; other site 338966006528 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 338966006529 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 338966006530 active site 338966006531 metal binding site [ion binding]; metal-binding site 338966006532 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 338966006533 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 338966006534 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 338966006535 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 338966006536 catalytic residues [active] 338966006537 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 338966006538 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338966006539 substrate binding pocket [chemical binding]; other site 338966006540 chain length determination region; other site 338966006541 substrate-Mg2+ binding site; other site 338966006542 catalytic residues [active] 338966006543 aspartate-rich region 1; other site 338966006544 active site lid residues [active] 338966006545 aspartate-rich region 2; other site 338966006546 Flagellin N-methylase; Region: FliB; pfam03692 338966006547 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 338966006548 GMP synthase; Reviewed; Region: guaA; PRK00074 338966006549 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 338966006550 AMP/PPi binding site [chemical binding]; other site 338966006551 candidate oxyanion hole; other site 338966006552 catalytic triad [active] 338966006553 potential glutamine specificity residues [chemical binding]; other site 338966006554 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 338966006555 ATP Binding subdomain [chemical binding]; other site 338966006556 Ligand Binding sites [chemical binding]; other site 338966006557 Dimerization subdomain; other site 338966006558 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 338966006559 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; cl17186 338966006560 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...; Region: CBS_pair_IMPDH; cd04601 338966006561 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...; Region: IMPDH; cd00381 338966006562 active site 338966006563 photolyase PhrII; Region: phr2; TIGR00591 338966006564 DNA photolyase; Region: DNA_photolyase; pfam00875 338966006565 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 338966006566 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 338966006567 dimer interface [polypeptide binding]; other site 338966006568 conserved gate region; other site 338966006569 putative PBP binding loops; other site 338966006570 ABC-ATPase subunit interface; other site 338966006571 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 338966006572 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 338966006573 dimer interface [polypeptide binding]; other site 338966006574 conserved gate region; other site 338966006575 putative PBP binding loops; other site 338966006576 ABC-ATPase subunit interface; other site 338966006577 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 338966006578 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 338966006579 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966006580 catalytic residue [active] 338966006581 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 338966006582 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 338966006583 trimerization site [polypeptide binding]; other site 338966006584 active site 338966006585 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 338966006586 NifU-like domain; Region: NifU; cl00484 338966006587 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 338966006588 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 338966006589 active site 338966006590 substrate binding site [chemical binding]; other site 338966006591 metal binding site [ion binding]; metal-binding site 338966006592 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 338966006593 Outer membrane efflux protein; Region: OEP; pfam02321 338966006594 Outer membrane efflux protein; Region: OEP; pfam02321 338966006595 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 338966006596 lipoyl attachment site [posttranslational modification]; other site 338966006597 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 338966006598 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966006599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 338966006600 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 338966006601 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 338966006602 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 338966006603 carboxyltransferase (CT) interaction site; other site 338966006604 biotinylation site [posttranslational modification]; other site 338966006605 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 338966006606 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 338966006607 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 338966006608 active site 338966006609 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 338966006610 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 338966006611 active site 338966006612 dimer interface [polypeptide binding]; other site 338966006613 metal binding site [ion binding]; metal-binding site 338966006614 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 338966006615 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 338966006616 Tetramer interface [polypeptide binding]; other site 338966006617 active site 338966006618 FMN-binding site [chemical binding]; other site 338966006619 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966006620 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966006621 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966006622 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966006623 Walker A motif; other site 338966006624 ATP binding site [chemical binding]; other site 338966006625 Walker B motif; other site 338966006626 glycerate dehydrogenase; Provisional; Region: PRK06487 338966006627 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 338966006628 putative ligand binding site [chemical binding]; other site 338966006629 putative NAD binding site [chemical binding]; other site 338966006630 catalytic site [active] 338966006631 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 338966006632 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 338966006633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966006634 Zn2+ binding site [ion binding]; other site 338966006635 Mg2+ binding site [ion binding]; other site 338966006636 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 338966006637 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 338966006638 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 338966006639 active site 338966006640 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 338966006641 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 338966006642 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 338966006643 Transporter associated domain; Region: CorC_HlyC; smart01091 338966006644 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 338966006645 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 338966006646 putative active site [active] 338966006647 catalytic triad [active] 338966006648 putative dimer interface [polypeptide binding]; other site 338966006649 peptide chain release factor 2; Validated; Region: prfB; PRK00578 338966006650 This domain is found in peptide chain release factors; Region: PCRF; smart00937 338966006651 RF-1 domain; Region: RF-1; pfam00472 338966006652 Sporulation related domain; Region: SPOR; pfam05036 338966006653 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338966006654 NlpC/P60 family; Region: NLPC_P60; pfam00877 338966006655 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 338966006656 Uncharacterized conserved protein [Function unknown]; Region: COG4198 338966006657 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 338966006658 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 338966006659 rRNA interaction site [nucleotide binding]; other site 338966006660 S8 interaction site; other site 338966006661 putative laminin-1 binding site; other site 338966006662 elongation factor Ts; Provisional; Region: tsf; PRK09377 338966006663 UBA/TS-N domain; Region: UBA; pfam00627 338966006664 Elongation factor TS; Region: EF_TS; pfam00889 338966006665 Elongation factor TS; Region: EF_TS; pfam00889 338966006666 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 338966006667 putative nucleotide binding site [chemical binding]; other site 338966006668 uridine monophosphate binding site [chemical binding]; other site 338966006669 homohexameric interface [polypeptide binding]; other site 338966006670 ribosome recycling factor; Reviewed; Region: frr; PRK00083 338966006671 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...; Region: RRF; cd00520 338966006672 hinge region; other site 338966006673 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 338966006674 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 338966006675 catalytic residue [active] 338966006676 putative FPP diphosphate binding site; other site 338966006677 putative FPP binding hydrophobic cleft; other site 338966006678 dimer interface [polypeptide binding]; other site 338966006679 putative IPP diphosphate binding site; other site 338966006680 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 338966006681 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 338966006682 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 338966006683 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 338966006684 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 338966006685 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 338966006686 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 338966006687 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 338966006688 active site 338966006689 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 338966006690 protein binding site [polypeptide binding]; other site 338966006691 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 338966006692 putative substrate binding region [chemical binding]; other site 338966006693 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 338966006694 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966006695 active site 338966006696 NTP binding site [chemical binding]; other site 338966006697 metal binding triad [ion binding]; metal-binding site 338966006698 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 338966006699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966006700 Zn2+ binding site [ion binding]; other site 338966006701 Mg2+ binding site [ion binding]; other site 338966006702 ABC-2 type transporter; Region: ABC2_membrane; cl17235 338966006703 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338966006704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 338966006705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966006706 Walker A/P-loop; other site 338966006707 ATP binding site [chemical binding]; other site 338966006708 Q-loop/lid; other site 338966006709 ABC transporter signature motif; other site 338966006710 Walker B; other site 338966006711 D-loop; other site 338966006712 H-loop/switch region; other site 338966006713 Hemerythrin; Region: Hemerythrin; cd12107 338966006714 Fe binding site [ion binding]; other site 338966006715 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966006716 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 338966006717 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 338966006718 TrkA-N domain; Region: TrkA_N; pfam02254 338966006719 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966006720 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 338966006721 putative active site [active] 338966006722 heme pocket [chemical binding]; other site 338966006723 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 338966006724 dimer interface [polypeptide binding]; other site 338966006725 phosphorylation site [posttranslational modification] 338966006726 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 338966006727 ATP binding site [chemical binding]; other site 338966006728 Mg2+ binding site [ion binding]; other site 338966006729 G-X-G motif; other site 338966006730 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966006731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006732 active site 338966006733 phosphorylation site [posttranslational modification] 338966006734 intermolecular recognition site; other site 338966006735 dimerization interface [polypeptide binding]; other site 338966006736 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966006737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006738 active site 338966006739 phosphorylation site [posttranslational modification] 338966006740 intermolecular recognition site; other site 338966006741 dimerization interface [polypeptide binding]; other site 338966006742 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 338966006743 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 338966006744 ABC1 family; Region: ABC1; cl17513 338966006745 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 338966006746 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 338966006747 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 338966006748 active site 338966006749 PHP Thumb interface [polypeptide binding]; other site 338966006750 metal binding site [ion binding]; metal-binding site 338966006751 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 338966006752 generic binding surface II; other site 338966006753 generic binding surface I; other site 338966006754 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 338966006755 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 338966006756 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 338966006757 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 338966006758 RNA binding surface [nucleotide binding]; other site 338966006759 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 338966006760 active site 338966006761 Protein of unknown function DUF262; Region: DUF262; pfam03235 338966006762 Uncharacterized conserved protein [Function unknown]; Region: COG1479 338966006763 Protein of unknown function DUF262; Region: DUF262; pfam03235 338966006764 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 338966006765 PIF1-like helicase; Region: PIF1; pfam05970 338966006766 AAA domain; Region: AAA_30; pfam13604 338966006767 Family description; Region: UvrD_C_2; pfam13538 338966006768 GTPase RsgA; Reviewed; Region: PRK00098 338966006769 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 338966006770 GTPase/Zn-binding domain interface [polypeptide binding]; other site 338966006771 GTP/Mg2+ binding site [chemical binding]; other site 338966006772 G4 box; other site 338966006773 G5 box; other site 338966006774 G1 box; other site 338966006775 Switch I region; other site 338966006776 G2 box; other site 338966006777 G3 box; other site 338966006778 Switch II region; other site 338966006779 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966006780 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; cl17173 338966006781 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 338966006782 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 338966006783 N-terminal plug; other site 338966006784 ligand-binding site [chemical binding]; other site 338966006785 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 338966006786 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 338966006787 intersubunit interface [polypeptide binding]; other site 338966006788 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 338966006789 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 338966006790 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 338966006791 ABC-ATPase subunit interface; other site 338966006792 dimer interface [polypeptide binding]; other site 338966006793 putative PBP binding regions; other site 338966006794 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 338966006795 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 338966006796 Walker A/P-loop; other site 338966006797 ATP binding site [chemical binding]; other site 338966006798 Q-loop/lid; other site 338966006799 ABC transporter signature motif; other site 338966006800 Walker B; other site 338966006801 D-loop; other site 338966006802 H-loop/switch region; other site 338966006803 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966006804 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 338966006805 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 338966006806 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 338966006807 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; cl17189 338966006808 Walker A motif; other site 338966006809 ATP binding site [chemical binding]; other site 338966006810 Walker B motif; other site 338966006811 arginine finger; other site 338966006812 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 338966006813 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 338966006814 ATP binding site [chemical binding]; other site 338966006815 Walker B motif; other site 338966006816 arginine finger; other site 338966006817 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 338966006818 metal ion-dependent adhesion site (MIDAS); other site 338966006819 CARDB; Region: CARDB; pfam07705 338966006820 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 338966006821 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 338966006822 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 338966006823 Sensory domain found in PocR; Region: PocR; pfam10114 338966006824 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966006825 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 338966006826 PAS fold; Region: PAS_3; pfam08447 338966006827 putative active site [active] 338966006828 heme pocket [chemical binding]; other site 338966006829 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966006830 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 338966006831 putative active site [active] 338966006832 heme pocket [chemical binding]; other site 338966006833 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 338966006834 dimer interface [polypeptide binding]; other site 338966006835 phosphorylation site [posttranslational modification] 338966006836 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 338966006837 ATP binding site [chemical binding]; other site 338966006838 Mg2+ binding site [ion binding]; other site 338966006839 G-X-G motif; other site 338966006840 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966006841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966006842 active site 338966006843 phosphorylation site [posttranslational modification] 338966006844 intermolecular recognition site; other site 338966006845 dimerization interface [polypeptide binding]; other site 338966006846 nickel responsive regulator; Provisional; Region: PRK04460 338966006847 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 338966006848 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 338966006849 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 338966006850 S-adenosylmethionine binding site [chemical binding]; other site 338966006851 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 338966006852 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 338966006853 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 338966006854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966006855 catalytic residue [active] 338966006856 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 338966006857 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 338966006858 Substrate binding site; other site 338966006859 Cupin domain; Region: Cupin_2; cl17218 338966006860 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 338966006861 Cupin domain; Region: Cupin_2; cl17218 338966006862 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 338966006863 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 338966006864 NADP binding site [chemical binding]; other site 338966006865 active site 338966006866 putative substrate binding site [chemical binding]; other site 338966006867 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 338966006868 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 338966006869 NAD binding site [chemical binding]; other site 338966006870 substrate binding site [chemical binding]; other site 338966006871 homodimer interface [polypeptide binding]; other site 338966006872 active site 338966006873 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 338966006874 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...; Region: LT_GEWL; cd00254 338966006875 N-acetyl-D-glucosamine binding site [chemical binding]; other site 338966006876 catalytic residue [active] 338966006877 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966006878 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 338966006879 putative active site [active] 338966006880 hypothetical protein; Provisional; Region: PRK07208 338966006881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966006882 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966006883 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966006884 Probable Catalytic site; other site 338966006885 metal-binding site 338966006886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966006887 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl17183 338966006888 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 338966006889 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966006890 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966006891 Probable Catalytic site; other site 338966006892 metal-binding site 338966006893 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 338966006894 putative ligand binding site [chemical binding]; other site 338966006895 putative catalytic site [active] 338966006896 Methyltransferase domain; Region: Methyltransf_23; pfam13489 338966006897 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 338966006898 S-adenosylmethionine binding site [chemical binding]; other site 338966006899 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 338966006900 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 338966006901 Walker A/P-loop; other site 338966006902 ATP binding site [chemical binding]; other site 338966006903 Q-loop/lid; other site 338966006904 ABC transporter signature motif; other site 338966006905 Walker B; other site 338966006906 D-loop; other site 338966006907 H-loop/switch region; other site 338966006908 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 338966006909 putative carbohydrate binding site [chemical binding]; other site 338966006910 GxxExxY protein; Region: GxxExxY; TIGR04256 338966006911 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 338966006912 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338966006913 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 338966006914 active site 338966006915 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 338966006916 HDOD domain; Region: HDOD; pfam08668 338966006917 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 338966006918 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 338966006919 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 338966006920 Walker A motif; other site 338966006921 ATP binding site [chemical binding]; other site 338966006922 Walker B motif; other site 338966006923 arginine finger; other site 338966006924 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 338966006925 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 338966006926 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 338966006927 trimer interface [polypeptide binding]; other site 338966006928 active site 338966006929 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966006930 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966006931 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966006932 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 338966006933 DJ-1 family protein; Region: not_thiJ; TIGR01383 338966006934 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 338966006935 conserved cys residue [active] 338966006936 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 338966006937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966006938 Zn2+ binding site [ion binding]; other site 338966006939 Mg2+ binding site [ion binding]; other site 338966006940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966006941 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966006942 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966006943 AAA domain; Region: AAA_22; pfam13401 338966006944 Integrase core domain; Region: rve; pfam00665 338966006945 AAA domain; Region: AAA_25; pfam13481 338966006946 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966006947 Walker A motif; other site 338966006948 ATP binding site [chemical binding]; other site 338966006949 Walker B motif; other site 338966006950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 338966006951 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 338966006952 active site 338966006953 metal binding site [ion binding]; metal-binding site 338966006954 interdomain interaction site; other site 338966006955 Predicted membrane protein [Function unknown]; Region: COG4709 338966006956 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 338966006957 salt bridge; other site 338966006958 non-specific DNA binding site [nucleotide binding]; other site 338966006959 sequence-specific DNA binding site [nucleotide binding]; other site 338966006960 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 338966006961 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 338966006962 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966006963 active site 338966006964 DNA binding site [nucleotide binding] 338966006965 Int/Topo IB signature motif; other site 338966006966 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 338966006967 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 338966006968 ABC-ATPase subunit interface; other site 338966006969 dimer interface [polypeptide binding]; other site 338966006970 putative PBP binding regions; other site 338966006971 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 338966006972 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 338966006973 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 338966006974 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 338966006975 intersubunit interface [polypeptide binding]; other site 338966006976 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 338966006977 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 338966006978 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 338966006979 hypothetical protein; Reviewed; Region: PRK09588 338966006980 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 338966006981 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 338966006982 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 338966006983 tetrameric interface [polypeptide binding]; other site 338966006984 activator binding site; other site 338966006985 NADP binding site [chemical binding]; other site 338966006986 substrate binding site [chemical binding]; other site 338966006987 catalytic residues [active] 338966006988 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 338966006989 putative chaperone; Provisional; Region: PRK11678 338966006990 nucleotide binding site [chemical binding]; other site 338966006991 putative NEF/HSP70 interaction site [polypeptide binding]; other site 338966006992 SBD interface [polypeptide binding]; other site 338966006993 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 338966006994 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 338966006995 GTP/Mg2+ binding site [chemical binding]; other site 338966006996 G4 box; other site 338966006997 G5 box; other site 338966006998 G1 box; other site 338966006999 Switch I region; other site 338966007000 G2 box; other site 338966007001 G3 box; other site 338966007002 Switch II region; other site 338966007003 OmpW family; Region: OmpW; cl17427 338966007004 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 338966007005 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 338966007006 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 338966007007 Part of AAA domain; Region: AAA_19; pfam13245 338966007008 Family description; Region: UvrD_C_2; pfam13538 338966007009 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 338966007010 AAA domain; Region: AAA_30; pfam13604 338966007011 Family description; Region: UvrD_C_2; pfam13538 338966007012 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 338966007013 Uncharacterized conserved protein [Function unknown]; Region: COG1633 338966007014 diiron binding motif [ion binding]; other site 338966007015 HAMP domain; Region: HAMP; pfam00672 338966007016 dimerization interface [polypeptide binding]; other site 338966007017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966007018 dimer interface [polypeptide binding]; other site 338966007019 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966007020 putative CheW interface [polypeptide binding]; other site 338966007021 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338966007022 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 338966007023 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966007024 amino acid carrier protein; Region: agcS; TIGR00835 338966007025 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 338966007026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 338966007027 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 338966007028 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 338966007029 Interdomain contacts; other site 338966007030 Cytokine receptor motif; other site 338966007031 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007032 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 338966007033 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007034 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 338966007035 Carbon starvation protein CstA; Region: CstA; pfam02554 338966007036 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 338966007037 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 338966007038 domain_subunit interface; other site 338966007039 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 338966007040 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966007041 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 338966007042 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 338966007043 4Fe-4S binding domain; Region: Fer4; pfam00037 338966007044 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 338966007045 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 338966007046 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 338966007047 active site 338966007048 FMN binding site [chemical binding]; other site 338966007049 substrate binding site [chemical binding]; other site 338966007050 3Fe-4S cluster binding site [ion binding]; other site 338966007051 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 338966007052 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 338966007053 putative active site [active] 338966007054 NAD synthetase; Reviewed; Region: nadE; PRK02628 338966007055 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 338966007056 multimer interface [polypeptide binding]; other site 338966007057 active site 338966007058 catalytic triad [active] 338966007059 protein interface 1 [polypeptide binding]; other site 338966007060 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 338966007061 homodimer interface [polypeptide binding]; other site 338966007062 NAD binding pocket [chemical binding]; other site 338966007063 ATP binding pocket [chemical binding]; other site 338966007064 Mg binding site [ion binding]; other site 338966007065 active-site loop [active] 338966007066 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 338966007067 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 338966007068 putative ligand binding site [chemical binding]; other site 338966007069 putative NAD binding site [chemical binding]; other site 338966007070 putative catalytic site [active] 338966007071 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 338966007072 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 338966007073 tetramer interface [polypeptide binding]; other site 338966007074 active site 338966007075 Mg2+/Mn2+ binding site [ion binding]; other site 338966007076 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 338966007077 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 338966007078 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 338966007079 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 338966007080 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966007081 Walker A motif; other site 338966007082 ATP binding site [chemical binding]; other site 338966007083 Walker B motif; other site 338966007084 arginine finger; other site 338966007085 elongation factor G; Reviewed; Region: PRK13351 338966007086 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 338966007087 G1 box; other site 338966007088 putative GEF interaction site [polypeptide binding]; other site 338966007089 GTP/Mg2+ binding site [chemical binding]; other site 338966007090 Switch I region; other site 338966007091 G2 box; other site 338966007092 G3 box; other site 338966007093 Switch II region; other site 338966007094 G4 box; other site 338966007095 G5 box; other site 338966007096 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 338966007097 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 338966007098 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 338966007099 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966007100 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 338966007101 Walker A motif; other site 338966007102 ATP binding site [chemical binding]; other site 338966007103 Walker B motif; other site 338966007104 arginine finger; other site 338966007105 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966007106 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 338966007107 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 338966007108 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...; Region: Peptidase_C39G; cd02423 338966007109 putative active site [active] 338966007110 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 338966007111 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 338966007112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 338966007113 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 338966007114 putative dimerization interface [polypeptide binding]; other site 338966007115 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 338966007116 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 338966007117 Peptidase family M48; Region: Peptidase_M48; cl12018 338966007118 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 338966007119 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 338966007120 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338966007121 Walker A/P-loop; other site 338966007122 ATP binding site [chemical binding]; other site 338966007123 Q-loop/lid; other site 338966007124 ABC transporter signature motif; other site 338966007125 Walker B; other site 338966007126 D-loop; other site 338966007127 H-loop/switch region; other site 338966007128 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 338966007129 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 338966007130 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 338966007131 Walker A/P-loop; other site 338966007132 ATP binding site [chemical binding]; other site 338966007133 Q-loop/lid; other site 338966007134 ABC transporter signature motif; other site 338966007135 Walker B; other site 338966007136 D-loop; other site 338966007137 H-loop/switch region; other site 338966007138 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 338966007139 Rhomboid family; Region: Rhomboid; pfam01694 338966007140 PilZ domain; Region: PilZ; pfam07238 338966007141 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 338966007142 aspartate aminotransferase; Provisional; Region: PRK05764 338966007143 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 338966007144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966007145 homodimer interface [polypeptide binding]; other site 338966007146 catalytic residue [active] 338966007147 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 338966007148 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 338966007149 active site 338966007150 (T/H)XGH motif; other site 338966007151 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 338966007152 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 338966007153 S-adenosylmethionine binding site [chemical binding]; other site 338966007154 TPR repeat; Region: TPR_11; pfam13414 338966007155 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 338966007156 binding surface 338966007157 TPR motif; other site 338966007158 TPR repeat; Region: TPR_11; pfam13414 338966007159 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 338966007160 homodimer interaction site [polypeptide binding]; other site 338966007161 cofactor binding site; other site 338966007162 rod shape-determining protein MreC; Provisional; Region: PRK13922 338966007163 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 338966007164 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 338966007165 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 338966007166 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 338966007167 Fasciclin domain; Region: Fasciclin; pfam02469 338966007168 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 338966007169 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 338966007170 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966007171 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 338966007172 Protein export membrane protein; Region: SecD_SecF; cl14618 338966007173 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 338966007174 Protein export membrane protein; Region: SecD_SecF; cl14618 338966007175 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966007176 H+ Antiporter protein; Region: 2A0121; TIGR00900 338966007177 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 338966007178 putative substrate translocation pore; other site 338966007179 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 338966007180 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 338966007181 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966007182 Sulfate transporter family; Region: Sulfate_transp; pfam00916 338966007183 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 338966007184 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 338966007185 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 338966007186 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 338966007187 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 338966007188 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 338966007189 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 338966007190 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966007191 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 338966007192 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 338966007193 NADP binding site [chemical binding]; other site 338966007194 dimer interface [polypeptide binding]; other site 338966007195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 338966007196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 338966007197 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 338966007198 EF-hand domain pair; Region: EF_hand_5; pfam13499 338966007199 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 338966007200 Ca2+ binding site [ion binding]; other site 338966007201 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 338966007202 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 338966007203 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966007204 Walker A/P-loop; other site 338966007205 ATP binding site [chemical binding]; other site 338966007206 Q-loop/lid; other site 338966007207 ABC transporter signature motif; other site 338966007208 Walker B; other site 338966007209 D-loop; other site 338966007210 H-loop/switch region; other site 338966007211 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966007212 FtsX-like permease family; Region: FtsX; pfam02687 338966007213 macrolide transporter subunit MacA; Provisional; Region: PRK11578 338966007214 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 338966007215 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966007216 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 338966007217 protein binding site [polypeptide binding]; other site 338966007218 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966007219 dimer interface [polypeptide binding]; other site 338966007220 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; cl17302 338966007221 Ca2+ binding site [ion binding]; other site 338966007222 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966007223 dimer interface [polypeptide binding]; other site 338966007224 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 338966007225 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 338966007226 dimerization interface [polypeptide binding]; other site 338966007227 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 338966007228 dimer interface [polypeptide binding]; other site 338966007229 phosphorylation site [posttranslational modification] 338966007230 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 338966007231 ATP binding site [chemical binding]; other site 338966007232 Mg2+ binding site [ion binding]; other site 338966007233 G-X-G motif; other site 338966007234 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 338966007235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966007236 active site 338966007237 phosphorylation site [posttranslational modification] 338966007238 intermolecular recognition site; other site 338966007239 dimerization interface [polypeptide binding]; other site 338966007240 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 338966007241 DNA binding site [nucleotide binding] 338966007242 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 338966007243 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966007244 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 338966007245 propionate/acetate kinase; Provisional; Region: PRK12379 338966007246 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966007247 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 338966007248 TPR motif; other site 338966007249 TPR repeat; Region: TPR_11; pfam13414 338966007250 binding surface 338966007251 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 338966007252 binding surface 338966007253 TPR motif; other site 338966007254 TPR repeat; Region: TPR_11; pfam13414 338966007255 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966007256 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966007257 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 338966007258 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 338966007259 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338966007260 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338966007261 Protein of unknown function (DUF342); Region: DUF342; pfam03961 338966007262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 338966007263 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 338966007264 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 338966007265 Walker A motif; other site 338966007266 ATP binding site [chemical binding]; other site 338966007267 Walker B motif; other site 338966007268 arginine finger; other site 338966007269 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 338966007270 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 338966007271 lipoyl synthase; Provisional; Region: PRK05481 338966007272 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 338966007273 FeS/SAM binding site; other site 338966007274 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 338966007275 homodimer interface [polypeptide binding]; other site 338966007276 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 338966007277 active site pocket [active] 338966007278 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966007279 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966007280 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966007281 recombination factor protein RarA; Reviewed; Region: PRK13342 338966007282 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 338966007283 Walker A motif; other site 338966007284 ATP binding site [chemical binding]; other site 338966007285 Walker B motif; other site 338966007286 arginine finger; other site 338966007287 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 338966007288 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 338966007289 putative hydrophobic ligand binding site [chemical binding]; other site 338966007290 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 338966007291 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 338966007292 oligomer interface [polypeptide binding]; other site 338966007293 metal binding site [ion binding]; metal-binding site 338966007294 metal binding site [ion binding]; metal-binding site 338966007295 Cl binding site [ion binding]; other site 338966007296 aspartate ring; other site 338966007297 basic sphincter; other site 338966007298 putative hydrophobic gate; other site 338966007299 periplasmic entrance; other site 338966007300 Membrane protein of unknown function; Region: DUF360; pfam04020 338966007301 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 338966007302 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 338966007303 Ligand Binding Site [chemical binding]; other site 338966007304 TilS substrate C-terminal domain; Region: TilS_C; smart00977 338966007305 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 338966007306 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 338966007307 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 338966007308 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 338966007309 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 338966007310 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 338966007311 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 338966007312 putative active site [active] 338966007313 FtsH Extracellular; Region: FtsH_ext; pfam06480 338966007314 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338966007315 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 338966007316 Walker A motif; other site 338966007317 ATP binding site [chemical binding]; other site 338966007318 Walker B motif; other site 338966007319 arginine finger; other site 338966007320 Peptidase family M41; Region: Peptidase_M41; pfam01434 338966007321 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 338966007322 dihydropteroate synthase; Region: DHPS; TIGR01496 338966007323 substrate binding pocket [chemical binding]; other site 338966007324 dimer interface [polypeptide binding]; other site 338966007325 inhibitor binding site; inhibition site 338966007326 Uncharacterized conserved protein [Function unknown]; Region: COG1624 338966007327 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 338966007328 YbbR-like protein; Region: YbbR; pfam07949 338966007329 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 338966007330 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 338966007331 active site 338966007332 substrate binding site [chemical binding]; other site 338966007333 metal binding site [ion binding]; metal-binding site 338966007334 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...; Region: PNPsynthase; cd00003 338966007335 active site 338966007336 hydrophilic channel; other site 338966007337 dimerization interface [polypeptide binding]; other site 338966007338 catalytic residues [active] 338966007339 active site lid [active] 338966007340 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14656 338966007341 Uncharacterized conserved protein [Function unknown]; Region: COG0062 338966007342 putative carbohydrate kinase; Provisional; Region: PRK10565 338966007343 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 338966007344 putative substrate binding site [chemical binding]; other site 338966007345 putative ATP binding site [chemical binding]; other site 338966007346 FOG: CBS domain [General function prediction only]; Region: COG0517 338966007347 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 338966007348 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 338966007349 aspartate kinase; Reviewed; Region: PRK06635 338966007350 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 338966007351 putative nucleotide binding site [chemical binding]; other site 338966007352 putative catalytic residues [active] 338966007353 putative Mg ion binding site [ion binding]; other site 338966007354 putative aspartate binding site [chemical binding]; other site 338966007355 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 338966007356 putative allosteric regulatory site; other site 338966007357 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 338966007358 putative allosteric regulatory residue; other site 338966007359 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 338966007360 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 338966007361 nucleoside/Zn binding site; other site 338966007362 dimer interface [polypeptide binding]; other site 338966007363 catalytic motif [active] 338966007364 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 338966007365 trypsin interaction site; other site 338966007366 Integrase core domain; Region: rve; pfam00665 338966007367 AAA domain; Region: AAA_22; pfam13401 338966007368 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 338966007369 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966007370 MPN+ (JAMM) motif; other site 338966007371 Zinc-binding site [ion binding]; other site 338966007372 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 338966007373 IHF dimer interface [polypeptide binding]; other site 338966007374 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 338966007375 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 338966007376 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338966007377 TIGR02687 family protein; Region: TIGR02687 338966007378 PglZ domain; Region: PglZ; pfam08665 338966007379 Fic family protein [Function unknown]; Region: COG3177 338966007380 Fic/DOC family; Region: Fic; pfam02661 338966007381 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966007382 synthetase active site [active] 338966007383 NTP binding site [chemical binding]; other site 338966007384 metal binding site [ion binding]; metal-binding site 338966007385 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966007386 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 338966007387 P-loop; other site 338966007388 Magnesium ion binding site [ion binding]; other site 338966007389 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 338966007390 Magnesium ion binding site [ion binding]; other site 338966007391 Pleckstrin homology-like domain; Region: PH-like; cl17171 338966007392 Methyltransferase domain; Region: Methyltransf_26; pfam13659 338966007393 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 338966007394 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 338966007395 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 338966007396 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 338966007397 integrase; Provisional; Region: PRK09692 338966007398 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 338966007399 active site 338966007400 Int/Topo IB signature motif; other site 338966007401 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 338966007402 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 338966007403 DNA binding residues [nucleotide binding] 338966007404 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 338966007405 IHF dimer interface [polypeptide binding]; other site 338966007406 IHF - DNA interface [nucleotide binding]; other site 338966007407 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 338966007408 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 338966007409 putative tRNA-binding site [nucleotide binding]; other site 338966007410 B3/4 domain; Region: B3_4; pfam03483 338966007411 tRNA synthetase B5 domain; Region: B5; pfam03484 338966007412 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 338966007413 dimer interface [polypeptide binding]; other site 338966007414 motif 1; other site 338966007415 motif 3; other site 338966007416 motif 2; other site 338966007417 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 338966007418 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 338966007419 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 338966007420 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 338966007421 dimer interface [polypeptide binding]; other site 338966007422 motif 1; other site 338966007423 active site 338966007424 motif 2; other site 338966007425 motif 3; other site 338966007426 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 338966007427 23S rRNA binding site [nucleotide binding]; other site 338966007428 L21 binding site [polypeptide binding]; other site 338966007429 L13 binding site [polypeptide binding]; other site 338966007430 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 338966007431 translation initiation factor IF-3; Region: infC; TIGR00168 338966007432 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 338966007433 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 338966007434 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 338966007435 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 338966007436 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 338966007437 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 338966007438 active site 338966007439 dimer interface [polypeptide binding]; other site 338966007440 motif 1; other site 338966007441 motif 2; other site 338966007442 motif 3; other site 338966007443 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 338966007444 anticodon binding site; other site 338966007445 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 338966007446 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 338966007447 active site 338966007448 dimerization interface [polypeptide binding]; other site 338966007449 ribonuclease PH; Reviewed; Region: rph; PRK00173 338966007450 Ribonuclease PH; Region: RNase_PH_bact; cd11362 338966007451 hexamer interface [polypeptide binding]; other site 338966007452 active site 338966007453 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338966007454 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 338966007455 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 338966007456 active site 338966007457 catalytic residues [active] 338966007458 metal binding site [ion binding]; metal-binding site 338966007459 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 338966007460 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007461 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007462 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007463 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 338966007464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 338966007465 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 338966007466 putative efflux protein, MATE family; Region: matE; TIGR00797 338966007467 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 338966007468 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966007469 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 338966007470 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966007471 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 338966007472 DNA binding residues [nucleotide binding] 338966007473 dimerization interface [polypeptide binding]; other site 338966007474 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 338966007475 HSP70 interaction site [polypeptide binding]; other site 338966007476 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 338966007477 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 338966007478 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; cl17189 338966007479 Walker A motif; other site 338966007480 ATP binding site [chemical binding]; other site 338966007481 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 338966007482 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 338966007483 Walker A motif; other site 338966007484 ATP binding site [chemical binding]; other site 338966007485 Walker B motif; other site 338966007486 arginine finger; other site 338966007487 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 338966007488 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 338966007489 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 338966007490 Sporulation related domain; Region: SPOR; pfam05036 338966007491 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 338966007492 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 338966007493 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 338966007494 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 338966007495 TPP-binding site [chemical binding]; other site 338966007496 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 338966007497 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 338966007498 dimer interface [polypeptide binding]; other site 338966007499 PYR/PP interface [polypeptide binding]; other site 338966007500 TPP binding site [chemical binding]; other site 338966007501 substrate binding site [chemical binding]; other site 338966007502 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 338966007503 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966007504 malate dehydrogenase; Reviewed; Region: PRK06223 338966007505 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 338966007506 NAD(P) binding site [chemical binding]; other site 338966007507 dimer interface [polypeptide binding]; other site 338966007508 tetramer (dimer of dimers) interface [polypeptide binding]; other site 338966007509 substrate binding site [chemical binding]; other site 338966007510 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966007511 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 338966007512 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 338966007513 dimer interface [polypeptide binding]; other site 338966007514 anticodon binding site; other site 338966007515 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...; Region: AspRS_core; cd00777 338966007516 homodimer interface [polypeptide binding]; other site 338966007517 motif 1; other site 338966007518 active site 338966007519 motif 2; other site 338966007520 GAD domain; Region: GAD; pfam02938 338966007521 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...; Region: AspRS_core; cd00777 338966007522 motif 3; other site 338966007523 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 338966007524 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 338966007525 Catalytic site [active] 338966007526 GTP-binding protein LepA; Provisional; Region: PRK05433 338966007527 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 338966007528 G1 box; other site 338966007529 putative GEF interaction site [polypeptide binding]; other site 338966007530 GTP/Mg2+ binding site [chemical binding]; other site 338966007531 Switch I region; other site 338966007532 G2 box; other site 338966007533 G3 box; other site 338966007534 Switch II region; other site 338966007535 G4 box; other site 338966007536 G5 box; other site 338966007537 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 338966007538 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 338966007539 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 338966007540 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 338966007541 putative substrate translocation pore; other site 338966007542 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966007543 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 338966007544 S-adenosylmethionine binding site [chemical binding]; other site 338966007545 Protein of unknown function, DUF479; Region: DUF479; cl01203 338966007546 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966007547 putative ssRNA endonuclease; Provisional; Region: PRK11558 338966007548 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 338966007549 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 338966007550 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 338966007551 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 338966007552 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 338966007553 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 338966007554 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 338966007555 helicase Cas3; Provisional; Region: PRK09694 338966007556 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 338966007557 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; cl17251 338966007558 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 338966007559 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 338966007560 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 338966007561 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 338966007562 active site 338966007563 catalytic site [active] 338966007564 substrate binding site [chemical binding]; other site 338966007565 AAA domain; Region: AAA_32; pfam13654 338966007566 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338966007567 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 338966007568 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 338966007569 ATP binding site [chemical binding]; other site 338966007570 putative Mg++ binding site [ion binding]; other site 338966007571 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 338966007572 nucleotide binding region [chemical binding]; other site 338966007573 ATP-binding site [chemical binding]; other site 338966007574 Helicase associated domain (HA2); Region: HA2; pfam04408 338966007575 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 338966007576 Chorismate mutase type II; Region: CM_2; cl00693 338966007577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966007578 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 338966007579 Coenzyme A binding pocket [chemical binding]; other site 338966007580 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 338966007581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 338966007582 NAD binding site [chemical binding]; other site 338966007583 catalytic residues [active] 338966007584 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 338966007585 FMN binding site [chemical binding]; other site 338966007586 dimer interface [polypeptide binding]; other site 338966007587 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 338966007588 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 338966007589 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; cl17173 338966007590 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 338966007591 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 338966007592 CoA-binding site [chemical binding]; other site 338966007593 ATP-binding [chemical binding]; other site 338966007594 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 338966007595 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 338966007596 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 338966007597 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966007598 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 338966007599 putative active site [active] 338966007600 heme pocket [chemical binding]; other site 338966007601 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 338966007602 dimer interface [polypeptide binding]; other site 338966007603 phosphorylation site [posttranslational modification] 338966007604 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 338966007605 ATP binding site [chemical binding]; other site 338966007606 Mg2+ binding site [ion binding]; other site 338966007607 G-X-G motif; other site 338966007608 Response regulator receiver domain; Region: Response_reg; pfam00072 338966007609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966007610 active site 338966007611 phosphorylation site [posttranslational modification] 338966007612 intermolecular recognition site; other site 338966007613 dimerization interface [polypeptide binding]; other site 338966007614 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 338966007615 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 338966007616 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 338966007617 shikimate binding site; other site 338966007618 NAD(P) binding site [chemical binding]; other site 338966007619 Dehydroquinase class II; Region: DHquinase_II; pfam01220 338966007620 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 338966007621 trimer interface [polypeptide binding]; other site 338966007622 active site 338966007623 dimer interface [polypeptide binding]; other site 338966007624 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 338966007625 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 338966007626 ADP binding site [chemical binding]; other site 338966007627 magnesium binding site [ion binding]; other site 338966007628 putative shikimate binding site; other site 338966007629 CheD chemotactic sensory transduction; Region: CheD; cl00810 338966007630 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 338966007631 Response regulator receiver domain; Region: Response_reg; pfam00072 338966007632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966007633 active site 338966007634 phosphorylation site [posttranslational modification] 338966007635 intermolecular recognition site; other site 338966007636 dimerization interface [polypeptide binding]; other site 338966007637 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 338966007638 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 338966007639 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 338966007640 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 338966007641 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966007642 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966007643 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 338966007644 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 338966007645 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338966007646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966007647 Walker A/P-loop; other site 338966007648 ATP binding site [chemical binding]; other site 338966007649 Q-loop/lid; other site 338966007650 ABC transporter signature motif; other site 338966007651 Walker B; other site 338966007652 D-loop; other site 338966007653 H-loop/switch region; other site 338966007654 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007655 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007656 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 338966007657 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007658 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007659 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007660 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 338966007661 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 338966007662 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 338966007663 Cadherin repeat-like domain; Region: CA_like; cl15786 338966007664 Ca2+ binding site [ion binding]; other site 338966007665 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 338966007666 Cadherin repeat-like domain; Region: CA_like; cl15786 338966007667 Ca2+ binding site [ion binding]; other site 338966007668 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...; Region: Lipase; cl14883 338966007669 nucleophilic elbow; other site 338966007670 catalytic triad; other site 338966007671 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 338966007672 Integrase; Region: Integrase_1; pfam12835 338966007673 Helix-turn-helix domain; Region: HTH_17; pfam12728 338966007674 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 338966007675 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 338966007676 active site 338966007677 Int/Topo IB signature motif; other site 338966007678 catalytic residues [active] 338966007679 DNA binding site [nucleotide binding] 338966007680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 338966007681 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 338966007682 AAA domain; Region: AAA_22; pfam13401 338966007683 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 338966007684 non-specific DNA binding site [nucleotide binding]; other site 338966007685 salt bridge; other site 338966007686 sequence-specific DNA binding site [nucleotide binding]; other site 338966007687 Predicted transcriptional regulator [Transcription]; Region: COG2932 338966007688 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 338966007689 Catalytic site [active] 338966007690 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 338966007691 Mor transcription activator family; Region: Mor; cl02360 338966007692 Mor transcription activator family; Region: Mor; cl02360 338966007693 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 338966007694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 338966007695 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 338966007696 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; Region: Thr-synth_2; cd01560 338966007697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966007698 catalytic residue [active] 338966007699 Uncharacterized conserved protein [Function unknown]; Region: COG1434 338966007700 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 338966007701 putative active site [active] 338966007702 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 338966007703 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 338966007704 homotrimer interaction site [polypeptide binding]; other site 338966007705 putative active site [active] 338966007706 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 338966007707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966007708 Zn2+ binding site [ion binding]; other site 338966007709 Mg2+ binding site [ion binding]; other site 338966007710 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 338966007711 synthetase active site [active] 338966007712 NTP binding site [chemical binding]; other site 338966007713 metal binding site [ion binding]; metal-binding site 338966007714 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 338966007715 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 338966007716 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 338966007717 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 338966007718 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 338966007719 catalytic site [active] 338966007720 G-X2-G-X-G-K; other site 338966007721 hypothetical protein; Provisional; Region: PRK11820 338966007722 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 338966007723 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 338966007724 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 338966007725 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 338966007726 TPP-binding site; other site 338966007727 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 338966007728 PYR/PP interface [polypeptide binding]; other site 338966007729 dimer interface [polypeptide binding]; other site 338966007730 TPP binding site [chemical binding]; other site 338966007731 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 338966007732 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 338966007733 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 338966007734 substrate binding pocket [chemical binding]; other site 338966007735 chain length determination region; other site 338966007736 substrate-Mg2+ binding site; other site 338966007737 catalytic residues [active] 338966007738 aspartate-rich region 1; other site 338966007739 active site lid residues [active] 338966007740 aspartate-rich region 2; other site 338966007741 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14066 338966007742 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 338966007743 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 338966007744 generic binding surface II; other site 338966007745 generic binding surface I; other site 338966007746 AAA domain; Region: AAA_31; pfam13614 338966007747 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 338966007748 P-loop; other site 338966007749 Magnesium ion binding site [ion binding]; other site 338966007750 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 338966007751 Magnesium ion binding site [ion binding]; other site 338966007752 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 338966007753 NodB motif; other site 338966007754 putative active site [active] 338966007755 putative catalytic site [active] 338966007756 Zn binding site [ion binding]; other site 338966007757 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 338966007758 C-terminal peptidase (prc); Region: prc; TIGR00225 338966007759 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 338966007760 protein binding site [polypeptide binding]; other site 338966007761 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 338966007762 Catalytic dyad [active] 338966007763 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 338966007764 Peptidase family M23; Region: Peptidase_M23; pfam01551 338966007765 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 338966007766 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 338966007767 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 338966007768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966007769 Walker A/P-loop; other site 338966007770 ATP binding site [chemical binding]; other site 338966007771 Q-loop/lid; other site 338966007772 ABC transporter signature motif; other site 338966007773 Walker B; other site 338966007774 D-loop; other site 338966007775 H-loop/switch region; other site 338966007776 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 338966007777 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 338966007778 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 338966007779 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 338966007780 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966007781 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 338966007782 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 338966007783 Walker A motif; other site 338966007784 ATP binding site [chemical binding]; other site 338966007785 Walker B motif; other site 338966007786 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966007787 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966007788 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966007789 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 338966007790 Ligand binding site; other site 338966007791 Putative Catalytic site; other site 338966007792 DXD motif; other site 338966007793 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; pfam01184 338966007794 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 338966007795 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338966007796 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338966007797 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 338966007798 Protein of unknown function DUF58; Region: DUF58; pfam01882 338966007799 MoxR-like ATPases [General function prediction only]; Region: COG0714 338966007800 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 338966007801 Walker A motif; other site 338966007802 ATP binding site [chemical binding]; other site 338966007803 Walker B motif; other site 338966007804 arginine finger; other site 338966007805 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 338966007806 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 338966007807 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 338966007808 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 338966007809 putative NADH binding site [chemical binding]; other site 338966007810 putative active site [active] 338966007811 nudix motif; other site 338966007812 putative metal binding site [ion binding]; other site 338966007813 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 338966007814 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 338966007815 metal binding site [ion binding]; metal-binding site 338966007816 dimer interface [polypeptide binding]; other site 338966007817 PilZ domain; Region: PilZ; pfam07238 338966007818 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 338966007819 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966007820 active site 338966007821 NTP binding site [chemical binding]; other site 338966007822 metal binding triad [ion binding]; metal-binding site 338966007823 antibiotic binding site [chemical binding]; other site 338966007824 HEPN domain; Region: HEPN; pfam05168 338966007825 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 338966007826 PemK-like protein; Region: PemK; pfam02452 338966007827 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 338966007828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966007829 active site 338966007830 phosphorylation site [posttranslational modification] 338966007831 intermolecular recognition site; other site 338966007832 dimerization interface [polypeptide binding]; other site 338966007833 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 338966007834 Walker A motif; other site 338966007835 ATP binding site [chemical binding]; other site 338966007836 Walker B motif; other site 338966007837 arginine finger; other site 338966007838 Protein of unknown function (DUF444); Region: DUF444; cl17371 338966007839 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966007840 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 338966007841 GAF domain; Region: GAF_3; pfam13492 338966007842 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 338966007843 dimer interface [polypeptide binding]; other site 338966007844 phosphorylation site [posttranslational modification] 338966007845 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 338966007846 ATP binding site [chemical binding]; other site 338966007847 Mg2+ binding site [ion binding]; other site 338966007848 G-X-G motif; other site 338966007849 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 338966007850 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 338966007851 NAD binding site [chemical binding]; other site 338966007852 substrate binding site [chemical binding]; other site 338966007853 homodimer interface [polypeptide binding]; other site 338966007854 active site 338966007855 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 338966007856 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 338966007857 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 338966007858 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 338966007859 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 338966007860 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 338966007861 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 338966007862 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 338966007863 ligand binding site [chemical binding]; other site 338966007864 flexible hinge region; other site 338966007865 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 338966007866 putative switch regulator; other site 338966007867 non-specific DNA interactions [nucleotide binding]; other site 338966007868 DNA binding site [nucleotide binding] 338966007869 sequence specific DNA binding site [nucleotide binding]; other site 338966007870 putative cAMP binding site [chemical binding]; other site 338966007871 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 338966007872 Interdomain contacts; other site 338966007873 Cytokine receptor motif; other site 338966007874 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007875 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 338966007876 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 338966007877 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 338966007878 DUF218 domain; Region: DUF218; pfam02698 338966007879 putative active site [active] 338966007880 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 338966007881 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966007882 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 338966007883 HicB family; Region: HicB; pfam05534 338966007884 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 338966007885 active site 338966007886 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 338966007887 homodimer interface [polypeptide binding]; other site 338966007888 PEP-CTERM motif; Region: VPEP; pfam07589 338966007889 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007890 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 338966007891 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 338966007892 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 338966007893 trimer interface [polypeptide binding]; other site 338966007894 active site 338966007895 substrate binding site [chemical binding]; other site 338966007896 CoA binding site [chemical binding]; other site 338966007897 O-Antigen ligase; Region: Wzy_C; cl04850 338966007898 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 338966007899 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338966007900 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007901 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 338966007902 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 338966007903 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 338966007904 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 338966007905 substrate binding site [chemical binding]; other site 338966007906 activation loop (A-loop); other site 338966007907 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 338966007908 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 338966007909 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 338966007910 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966007911 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 338966007912 S-adenosylmethionine binding site [chemical binding]; other site 338966007913 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966007914 active site 338966007915 NTP binding site [chemical binding]; other site 338966007916 metal binding triad [ion binding]; metal-binding site 338966007917 antibiotic binding site [chemical binding]; other site 338966007918 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 338966007919 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 338966007920 putative ADP-binding pocket [chemical binding]; other site 338966007921 GxxExxY protein; Region: GxxExxY; TIGR04256 338966007922 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 338966007923 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 338966007924 active site 338966007925 dimer interface [polypeptide binding]; other site 338966007926 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 338966007927 Ligand Binding Site [chemical binding]; other site 338966007928 Molecular Tunnel; other site 338966007929 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 338966007930 active site 338966007931 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 338966007932 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl17183 338966007933 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 338966007934 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 338966007935 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 338966007936 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 338966007937 putative active site [active] 338966007938 putative catalytic site [active] 338966007939 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 338966007940 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966007941 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 338966007942 Walker A motif; other site 338966007943 ATP binding site [chemical binding]; other site 338966007944 Walker B motif; other site 338966007945 arginine finger; other site 338966007946 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 338966007947 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966007948 Chain length determinant protein; Region: Wzz; pfam02706 338966007949 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 338966007950 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966007951 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966007952 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966007953 SLBB domain; Region: SLBB; pfam10531 338966007954 Bacterial sugar transferase; Region: Bac_transf; pfam02397 338966007955 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 338966007956 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 338966007957 binding surface 338966007958 TPR motif; other site 338966007959 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 338966007960 TPR motif; other site 338966007961 binding surface 338966007962 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 338966007963 TPR motif; other site 338966007964 binding surface 338966007965 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 338966007966 TPR motif; other site 338966007967 binding surface 338966007968 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 338966007969 binding surface 338966007970 TPR motif; other site 338966007971 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 338966007972 binding surface 338966007973 TPR motif; other site 338966007974 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 338966007975 binding surface 338966007976 TPR motif; other site 338966007977 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966007978 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 338966007979 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 338966007980 FeS/SAM binding site; other site 338966007981 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 338966007982 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 338966007983 FeS/SAM binding site; other site 338966007984 HemN C-terminal domain; Region: HemN_C; pfam06969 338966007985 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 338966007986 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 338966007987 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 338966007988 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 338966007989 L-aspartate oxidase; Provisional; Region: PRK06175 338966007990 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 338966007991 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 338966007992 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 338966007993 putative Iron-sulfur protein interface [polypeptide binding]; other site 338966007994 proximal heme binding site [chemical binding]; other site 338966007995 distal heme binding site [chemical binding]; other site 338966007996 putative dimer interface [polypeptide binding]; other site 338966007997 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 338966007998 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 338966007999 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 338966008000 dimerization interface [polypeptide binding]; other site 338966008001 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008002 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008003 metal binding site [ion binding]; metal-binding site 338966008004 active site 338966008005 I-site; other site 338966008006 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 338966008007 active site clefts [active] 338966008008 zinc binding site [ion binding]; other site 338966008009 dimer interface [polypeptide binding]; other site 338966008010 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 338966008011 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 338966008012 homodimer interface [polypeptide binding]; other site 338966008013 metal binding site [ion binding]; metal-binding site 338966008014 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 338966008015 homodimer interface [polypeptide binding]; other site 338966008016 active site 338966008017 putative chemical substrate binding site [chemical binding]; other site 338966008018 metal binding site [ion binding]; metal-binding site 338966008019 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 338966008020 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 338966008021 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 338966008022 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 338966008023 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 338966008024 S-adenosylmethionine binding site [chemical binding]; other site 338966008025 UGMP family protein; Validated; Region: PRK09604 338966008026 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 338966008027 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 338966008028 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 338966008029 putative active site [active] 338966008030 PhoH-like protein; Region: PhoH; pfam02562 338966008031 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 338966008032 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 338966008033 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966008034 catalytic residue [active] 338966008035 Right handed beta helix region; Region: Beta_helix; pfam13229 338966008036 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966008037 GAF domain; Region: GAF; pfam01590 338966008038 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008039 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008040 metal binding site [ion binding]; metal-binding site 338966008041 active site 338966008042 I-site; other site 338966008043 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 338966008044 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 338966008045 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 338966008046 active site 338966008047 dimer interface [polypeptide binding]; other site 338966008048 effector binding site; other site 338966008049 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 338966008050 TSCPD domain; Region: TSCPD; pfam12637 338966008051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008052 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 338966008053 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 338966008054 putative catalytic residues [active] 338966008055 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 338966008056 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 338966008057 FeS/SAM binding site; other site 338966008058 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 338966008059 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 338966008060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966008061 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 338966008062 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966008063 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966008064 Soluble P-type ATPase [General function prediction only]; Region: COG4087 338966008065 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966008066 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966008067 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 338966008068 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 338966008069 dimer interface [polypeptide binding]; other site 338966008070 phosphorylation site [posttranslational modification] 338966008071 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 338966008072 ATP binding site [chemical binding]; other site 338966008073 Mg2+ binding site [ion binding]; other site 338966008074 G-X-G motif; other site 338966008075 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 338966008076 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966008077 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966008078 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966008079 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 338966008080 Walker A motif; other site 338966008081 ATP binding site [chemical binding]; other site 338966008082 Walker B motif; other site 338966008083 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 338966008084 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966008085 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 338966008086 Walker A motif; other site 338966008087 ATP binding site [chemical binding]; other site 338966008088 Walker B motif; other site 338966008089 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 338966008090 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 338966008091 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 338966008092 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 338966008093 active site 338966008094 Riboflavin kinase; Region: Flavokinase; pfam01687 338966008095 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 338966008096 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 338966008097 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 338966008098 ssDNA binding site; other site 338966008099 generic binding surface II; other site 338966008100 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 338966008101 ATP binding site [chemical binding]; other site 338966008102 putative Mg++ binding site [ion binding]; other site 338966008103 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 338966008104 nucleotide binding region [chemical binding]; other site 338966008105 ATP-binding site [chemical binding]; other site 338966008106 PilZ domain; Region: PilZ; pfam07238 338966008107 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966008108 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 338966008109 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 338966008110 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 338966008111 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 338966008112 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338966008113 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966008114 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 338966008115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966008116 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 338966008117 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 338966008118 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 338966008119 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338966008120 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 338966008121 IMP binding site; other site 338966008122 dimer interface [polypeptide binding]; other site 338966008123 interdomain contacts; other site 338966008124 partial ornithine binding site; other site 338966008125 Protein of unknown function, DUF486; Region: DUF486; cl01236 338966008126 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 338966008127 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 338966008128 FeS/SAM binding site; other site 338966008129 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 338966008130 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 338966008131 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 338966008132 catalytic site [active] 338966008133 subunit interface [polypeptide binding]; other site 338966008134 dihydroorotase; Validated; Region: pyrC; PRK09357 338966008135 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 338966008136 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 338966008137 active site 338966008138 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 338966008139 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338966008140 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 338966008141 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 338966008142 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966008143 active site 338966008144 Part of AAA domain; Region: AAA_19; pfam13245 338966008145 Family description; Region: UvrD_C_2; pfam13538 338966008146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 338966008147 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966008148 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 338966008149 DEAD-like helicases superfamily; Region: DEXDc; smart00487 338966008150 ATP binding site [chemical binding]; other site 338966008151 Mg++ binding site [ion binding]; other site 338966008152 motif III; other site 338966008153 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 338966008154 nucleotide binding region [chemical binding]; other site 338966008155 ATP-binding site [chemical binding]; other site 338966008156 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 338966008157 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 338966008158 Part of AAA domain; Region: AAA_19; pfam13245 338966008159 Peptidase_C39 like family; Region: DUF3335; pfam11814 338966008160 Family description; Region: UvrD_C_2; pfam13538 338966008161 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 338966008162 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 338966008163 FAD binding domain; Region: FAD_binding_4; pfam01565 338966008164 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 338966008165 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966008166 Cysteine-rich domain; Region: CCG; pfam02754 338966008167 Cysteine-rich domain; Region: CCG; pfam02754 338966008168 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 338966008169 intersubunit interface [polypeptide binding]; other site 338966008170 active site 338966008171 Zn2+ binding site [ion binding]; other site 338966008172 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 338966008173 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 338966008174 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 338966008175 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338966008176 rod shape-determining protein MreD; Region: MreD; cl01087 338966008177 rod shape-determining protein MreC; Provisional; Region: PRK13922 338966008178 rod shape-determining protein MreC; Region: MreC; pfam04085 338966008179 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 338966008180 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 338966008181 substrate binding site; other site 338966008182 tetramer interface; other site 338966008183 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 338966008184 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 338966008185 active site 338966008186 motif I; other site 338966008187 motif II; other site 338966008188 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 338966008189 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 338966008190 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 338966008191 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 338966008192 tandem repeat interface [polypeptide binding]; other site 338966008193 oligomer interface [polypeptide binding]; other site 338966008194 active site residues [active] 338966008195 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 338966008196 active site 338966008197 metal binding site [ion binding]; metal-binding site 338966008198 homotetramer interface [polypeptide binding]; other site 338966008199 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 338966008200 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 338966008201 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 338966008202 ketol-acid reductoisomerase; Provisional; Region: PRK05479 338966008203 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 338966008204 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 338966008205 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 338966008206 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 338966008207 putative valine binding site [chemical binding]; other site 338966008208 dimer interface [polypeptide binding]; other site 338966008209 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 338966008210 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 338966008211 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 338966008212 putative valine binding site [chemical binding]; other site 338966008213 dimer interface [polypeptide binding]; other site 338966008214 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 338966008215 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 338966008216 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966008217 PYR/PP interface [polypeptide binding]; other site 338966008218 dimer interface [polypeptide binding]; other site 338966008219 TPP binding site [chemical binding]; other site 338966008220 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338966008221 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 338966008222 TPP-binding site [chemical binding]; other site 338966008223 dimer interface [polypeptide binding]; other site 338966008224 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 338966008225 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 338966008226 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966008227 PYR/PP interface [polypeptide binding]; other site 338966008228 dimer interface [polypeptide binding]; other site 338966008229 TPP binding site [chemical binding]; other site 338966008230 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338966008231 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 338966008232 TPP-binding site [chemical binding]; other site 338966008233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 338966008234 Transposase; Region: HTH_Tnp_1; cl17663 338966008235 Transposase IS200 like; Region: Y1_Tnp; cl00848 338966008236 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 338966008237 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 338966008238 nudix motif; other site 338966008239 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 338966008240 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 338966008241 active site 338966008242 substrate binding site [chemical binding]; other site 338966008243 Mg2+ binding site [ion binding]; other site 338966008244 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 338966008245 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 338966008246 peptidase T-like protein; Region: PepT-like; TIGR01883 338966008247 metal binding site [ion binding]; metal-binding site 338966008248 putative dimer interface [polypeptide binding]; other site 338966008249 exonuclease subunit SbcD; Provisional; Region: PRK10966 338966008250 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 338966008251 active site 338966008252 metal binding site [ion binding]; metal-binding site 338966008253 DNA binding site [nucleotide binding] 338966008254 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 338966008255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966008256 Walker A/P-loop; other site 338966008257 ATP binding site [chemical binding]; other site 338966008258 Q-loop/lid; other site 338966008259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966008260 ABC transporter signature motif; other site 338966008261 Walker B; other site 338966008262 D-loop; other site 338966008263 H-loop/switch region; other site 338966008264 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 338966008265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966008266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 338966008267 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 338966008268 HD domain; Region: HD_4; pfam13328 338966008269 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 338966008270 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 338966008271 active site 338966008272 dimer interface [polypeptide binding]; other site 338966008273 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 338966008274 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966008275 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 338966008276 FeS/SAM binding site; other site 338966008277 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966008278 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008279 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966008280 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 338966008281 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 338966008282 catalytic residues [active] 338966008283 catalytic nucleophile [active] 338966008284 Presynaptic Site I dimer interface [polypeptide binding]; other site 338966008285 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 338966008286 Synaptic Flat tetramer interface [polypeptide binding]; other site 338966008287 Synaptic Site I dimer interface [polypeptide binding]; other site 338966008288 DNA binding site [nucleotide binding] 338966008289 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; cl17393 338966008290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966008291 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 338966008292 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 338966008293 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 338966008294 Ligand binding site; other site 338966008295 Putative Catalytic site; other site 338966008296 DXD motif; other site 338966008297 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 338966008298 active site 338966008299 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 338966008300 ResB-like family; Region: ResB; pfam05140 338966008301 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 338966008302 AIR carboxylase; Region: AIRC; pfam00731 338966008303 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966008304 FIST N domain; Region: FIST; smart00897 338966008305 FIST C domain; Region: FIST_C; pfam10442 338966008306 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966008307 dimer interface [polypeptide binding]; other site 338966008308 putative CheW interface [polypeptide binding]; other site 338966008309 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 338966008310 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 338966008311 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 338966008312 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 338966008313 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 338966008314 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 338966008315 purine monophosphate binding site [chemical binding]; other site 338966008316 dimer interface [polypeptide binding]; other site 338966008317 putative catalytic residues [active] 338966008318 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 338966008319 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 338966008320 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 338966008321 alanine racemase; Reviewed; Region: alr; PRK00053 338966008322 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 338966008323 active site 338966008324 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966008325 dimer interface [polypeptide binding]; other site 338966008326 substrate binding site [chemical binding]; other site 338966008327 catalytic residues [active] 338966008328 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 338966008329 thiamine phosphate binding site [chemical binding]; other site 338966008330 active site 338966008331 pyrophosphate binding site [ion binding]; other site 338966008332 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 338966008333 substrate binding site [chemical binding]; other site 338966008334 dimer interface [polypeptide binding]; other site 338966008335 ATP binding site [chemical binding]; other site 338966008336 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 338966008337 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 338966008338 PAS domain; Region: PAS_9; pfam13426 338966008339 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 338966008340 putative active site [active] 338966008341 heme pocket [chemical binding]; other site 338966008342 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 338966008343 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966008344 putative active site [active] 338966008345 heme pocket [chemical binding]; other site 338966008346 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 338966008347 dimer interface [polypeptide binding]; other site 338966008348 phosphorylation site [posttranslational modification] 338966008349 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 338966008350 ATP binding site [chemical binding]; other site 338966008351 Mg2+ binding site [ion binding]; other site 338966008352 G-X-G motif; other site 338966008353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008354 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008355 active site 338966008356 phosphorylation site [posttranslational modification] 338966008357 intermolecular recognition site; other site 338966008358 dimerization interface [polypeptide binding]; other site 338966008359 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 338966008360 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 338966008361 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 338966008362 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 338966008363 ligand binding site [chemical binding]; other site 338966008364 flexible hinge region; other site 338966008365 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 338966008366 putative switch regulator; other site 338966008367 non-specific DNA interactions [nucleotide binding]; other site 338966008368 DNA binding site [nucleotide binding] 338966008369 sequence specific DNA binding site [nucleotide binding]; other site 338966008370 putative cAMP binding site [chemical binding]; other site 338966008371 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 338966008372 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 338966008373 TPP-binding site [chemical binding]; other site 338966008374 dimer interface [polypeptide binding]; other site 338966008375 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 338966008376 PYR/PP interface [polypeptide binding]; other site 338966008377 dimer interface [polypeptide binding]; other site 338966008378 TPP binding site [chemical binding]; other site 338966008379 thiamine monophosphate kinase; Provisional; Region: PRK05731 338966008380 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 338966008381 ATP binding site [chemical binding]; other site 338966008382 dimerization interface [polypeptide binding]; other site 338966008383 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 338966008384 CoenzymeA binding site [chemical binding]; other site 338966008385 subunit interaction site [polypeptide binding]; other site 338966008386 PHB binding site; other site 338966008387 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338966008388 Found in ATP-dependent protease La (LON); Region: LON; smart00464 338966008389 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 338966008390 Walker A motif; other site 338966008391 ATP binding site [chemical binding]; other site 338966008392 Walker B motif; other site 338966008393 arginine finger; other site 338966008394 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338966008395 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966008396 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 338966008397 putative dimer interface [polypeptide binding]; other site 338966008398 arginine decarboxylase; Provisional; Region: PRK05354 338966008399 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 338966008400 dimer interface [polypeptide binding]; other site 338966008401 active site 338966008402 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966008403 catalytic residues [active] 338966008404 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 338966008405 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 338966008406 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 338966008407 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 338966008408 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 338966008409 dimer interface [polypeptide binding]; other site 338966008410 active site 338966008411 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966008412 catalytic residues [active] 338966008413 substrate binding site [chemical binding]; other site 338966008414 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 338966008415 PAS fold; Region: PAS_3; pfam08447 338966008416 putative active site [active] 338966008417 heme pocket [chemical binding]; other site 338966008418 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 338966008419 PAS fold; Region: PAS_3; pfam08447 338966008420 putative active site [active] 338966008421 heme pocket [chemical binding]; other site 338966008422 PAS domain S-box; Region: sensory_box; TIGR00229 338966008423 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 338966008424 putative active site [active] 338966008425 heme pocket [chemical binding]; other site 338966008426 PAS domain S-box; Region: sensory_box; TIGR00229 338966008427 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 338966008428 putative active site [active] 338966008429 heme pocket [chemical binding]; other site 338966008430 PAS fold; Region: PAS_4; pfam08448 338966008431 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 338966008432 putative active site [active] 338966008433 heme pocket [chemical binding]; other site 338966008434 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 338966008435 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966008436 putative active site [active] 338966008437 heme pocket [chemical binding]; other site 338966008438 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 338966008439 dimer interface [polypeptide binding]; other site 338966008440 phosphorylation site [posttranslational modification] 338966008441 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 338966008442 ATP binding site [chemical binding]; other site 338966008443 Mg2+ binding site [ion binding]; other site 338966008444 G-X-G motif; 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 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 338966008452 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 338966008453 ATP binding site [chemical binding]; other site 338966008454 putative Mg++ binding site [ion binding]; other site 338966008455 helicase superfamily c-terminal domain; Region: HELICc; smart00490 338966008456 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966008457 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338966008458 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 338966008459 Walker A/P-loop; other site 338966008460 ATP binding site [chemical binding]; other site 338966008461 Q-loop/lid; other site 338966008462 ABC transporter signature motif; other site 338966008463 Walker B; other site 338966008464 D-loop; other site 338966008465 H-loop/switch region; other site 338966008466 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 338966008467 heme-binding site [chemical binding]; other site 338966008468 Mitochondrial PGP phosphatase; Region: PGP_phosphatase; pfam09419 338966008469 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 338966008470 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 338966008471 integron integrase; Region: integrase_gron; TIGR02249 338966008472 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 338966008473 Int/Topo IB signature motif; other site 338966008474 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966008476 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 338966008477 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 338966008478 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 338966008479 Rubrerythrin [Energy production and conversion]; Region: COG1592 338966008480 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 338966008481 binuclear metal center [ion binding]; other site 338966008482 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 338966008483 iron binding site [ion binding]; other site 338966008484 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 338966008485 putative efflux protein, MATE family; Region: matE; TIGR00797 338966008486 Cupin domain; Region: Cupin_2; pfam07883 338966008487 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 338966008488 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 338966008489 heterodimer interface [polypeptide binding]; other site 338966008490 active site 338966008491 FMN binding site [chemical binding]; other site 338966008492 homodimer interface [polypeptide binding]; other site 338966008493 substrate binding site [chemical binding]; other site 338966008494 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 338966008495 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 338966008496 FAD binding pocket [chemical binding]; other site 338966008497 FAD binding motif [chemical binding]; other site 338966008498 phosphate binding motif [ion binding]; other site 338966008499 beta-alpha-beta structure motif; other site 338966008500 NAD binding pocket [chemical binding]; other site 338966008501 Iron coordination center [ion binding]; other site 338966008502 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 338966008503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966008504 Coenzyme A binding pocket [chemical binding]; other site 338966008505 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966008506 MarR family; Region: MarR; pfam01047 338966008507 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 338966008508 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 338966008509 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966008510 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966008511 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 338966008512 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 338966008513 putative substrate translocation pore; other site 338966008514 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 338966008515 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 338966008516 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 338966008517 B12 binding site [chemical binding]; other site 338966008518 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966008519 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 338966008520 FeS/SAM binding site; other site 338966008521 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966008522 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 338966008523 TPR motif; other site 338966008524 binding surface 338966008525 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966008526 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 338966008527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966008528 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 338966008529 NlpC/P60 family; Region: NLPC_P60; pfam00877 338966008530 Uncharacterized conserved protein [Function unknown]; Region: COG1624 338966008531 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 338966008532 YbbR-like protein; Region: YbbR; pfam07949 338966008533 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 338966008534 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 338966008535 S-adenosylmethionine binding site [chemical binding]; other site 338966008536 membrane protein; Provisional; Region: PRK14393 338966008537 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 338966008538 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 338966008539 putative deacylase active site [active] 338966008540 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966008541 Coenzyme A binding pocket [chemical binding]; other site 338966008542 peptide chain release factor 1; Validated; Region: prfA; PRK00591 338966008543 This domain is found in peptide chain release factors; Region: PCRF; smart00937 338966008544 RF-1 domain; Region: RF-1; pfam00472 338966008545 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 338966008546 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 338966008547 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 338966008548 transcription termination factor Rho; Provisional; Region: rho; PRK09376 338966008549 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 338966008550 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 338966008551 RNA binding site [nucleotide binding]; other site 338966008552 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 338966008553 multimer interface [polypeptide binding]; other site 338966008554 Walker A motif; other site 338966008555 ATP binding site [chemical binding]; other site 338966008556 Walker B motif; other site 338966008557 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008558 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008559 active site 338966008560 phosphorylation site [posttranslational modification] 338966008561 intermolecular recognition site; other site 338966008562 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966008563 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 338966008564 ATP binding site [chemical binding]; other site 338966008565 G-X-G motif; other site 338966008566 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966008567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008568 active site 338966008569 phosphorylation site [posttranslational modification] 338966008570 intermolecular recognition site; other site 338966008571 dimerization interface [polypeptide binding]; other site 338966008572 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 338966008573 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 338966008574 peptide binding site [polypeptide binding]; other site 338966008575 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 338966008576 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 338966008577 TPR motif; other site 338966008578 binding surface 338966008579 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 338966008580 TPR motif; other site 338966008581 binding surface 338966008582 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 338966008583 binding surface 338966008584 TPR motif; other site 338966008585 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966008586 TPR repeat; Region: TPR_11; pfam13414 338966008587 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 338966008588 binding surface 338966008589 TPR motif; other site 338966008590 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 338966008591 binding surface 338966008592 TPR motif; other site 338966008593 TPR repeat; Region: TPR_11; pfam13414 338966008594 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 338966008595 binding surface 338966008596 TPR motif; other site 338966008597 TPR repeat; Region: TPR_11; pfam13414 338966008598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 338966008599 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 338966008600 AAA domain; Region: AAA_33; pfam13671 338966008601 active site 338966008602 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 338966008603 Na binding site [ion binding]; other site 338966008604 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966008605 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966008606 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 338966008607 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 338966008608 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 338966008609 anti sigma factor interaction site; other site 338966008610 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966008611 regulatory phosphorylation site [posttranslational modification]; other site 338966008612 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 338966008613 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 338966008614 ATP binding site [chemical binding]; other site 338966008615 Mg2+ binding site [ion binding]; other site 338966008616 G-X-G motif; other site 338966008617 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 338966008618 dimer interface [polypeptide binding]; other site 338966008619 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 338966008620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966008621 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 338966008622 DNA binding residues [nucleotide binding] 338966008623 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 338966008624 IHF dimer interface [polypeptide binding]; other site 338966008625 IHF - DNA interface [nucleotide binding]; other site 338966008626 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 338966008627 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 338966008628 inhibitor-cofactor binding pocket; inhibition site 338966008629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966008630 catalytic residue [active] 338966008631 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 338966008632 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 338966008633 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 338966008634 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 338966008635 Transcriptional regulators [Transcription]; Region: FadR; COG2186 338966008636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966008637 DNA-binding site [nucleotide binding]; DNA binding site 338966008638 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 338966008639 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 338966008640 RuvA N terminal domain; Region: RuvA_N; pfam01330 338966008641 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 338966008642 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...; Region: RuvC_resolvase; cd00529 338966008643 active site 338966008644 putative DNA-binding cleft [nucleotide binding]; other site 338966008645 dimer interface [polypeptide binding]; other site 338966008646 hypothetical protein; Validated; Region: PRK00110 338966008647 PAS domain; Region: PAS_9; pfam13426 338966008648 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 338966008649 putative active site [active] 338966008650 heme pocket [chemical binding]; other site 338966008651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008652 metal binding site [ion binding]; metal-binding site 338966008653 active site 338966008654 I-site; other site 338966008655 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 338966008656 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 338966008657 FOG: CBS domain [General function prediction only]; Region: COG0517 338966008658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008660 metal binding site [ion binding]; metal-binding site 338966008661 active site 338966008662 I-site; other site 338966008663 PBP superfamily domain; Region: PBP_like_2; cl17296 338966008664 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966008665 dimer interface [polypeptide binding]; other site 338966008666 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966008667 putative CheW interface [polypeptide binding]; other site 338966008668 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 338966008669 anti sigma factor interaction site; other site 338966008670 regulatory phosphorylation site [posttranslational modification]; other site 338966008671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966008672 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008673 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966008674 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 338966008675 dimerization interface [polypeptide binding]; other site 338966008676 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 338966008677 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966008678 putative active site [active] 338966008679 heme pocket [chemical binding]; other site 338966008680 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008681 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008682 metal binding site [ion binding]; metal-binding site 338966008683 active site 338966008684 I-site; other site 338966008685 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 338966008686 Uncharacterized conserved protein [Function unknown]; Region: COG1615 338966008687 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 338966008688 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 338966008689 active site 338966008690 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 338966008691 Walker A motif; other site 338966008692 ATP binding site [chemical binding]; other site 338966008693 Walker B motif; other site 338966008694 arginine finger; other site 338966008695 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 338966008696 Ligand binding site; other site 338966008697 Ligand binding site; other site 338966008698 Ligand binding site; other site 338966008699 Putative Catalytic site; other site 338966008700 DXD motif; other site 338966008701 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 338966008702 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 338966008703 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 338966008704 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 338966008705 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966008706 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 338966008707 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 338966008708 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 338966008709 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 338966008710 ATP binding site [chemical binding]; other site 338966008711 Walker A motif; other site 338966008712 hexamer interface [polypeptide binding]; other site 338966008713 Walker B motif; other site 338966008714 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966008715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 338966008716 active site 338966008717 phosphorylation site [posttranslational modification] 338966008718 dimerization interface [polypeptide binding]; other site 338966008719 AAA domain; Region: AAA_31; pfam13614 338966008720 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 338966008721 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 338966008722 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 338966008723 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 338966008724 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 338966008725 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 338966008726 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 338966008727 TadE-like protein; Region: TadE; pfam07811 338966008728 conserved hypothetical protein; Region: TIGR02231 338966008729 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 338966008730 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 338966008731 Sensory domain found in PocR; Region: PocR; pfam10114 338966008732 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966008733 PAS fold; Region: PAS_4; pfam08448 338966008734 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 338966008735 putative active site [active] 338966008736 heme pocket [chemical binding]; other site 338966008737 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 338966008738 PAS fold; Region: PAS_3; pfam08447 338966008739 putative active site [active] 338966008740 heme pocket [chemical binding]; other site 338966008741 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 338966008742 dimer interface [polypeptide binding]; other site 338966008743 phosphorylation site [posttranslational modification] 338966008744 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 338966008745 ATP binding site [chemical binding]; other site 338966008746 Mg2+ binding site [ion binding]; other site 338966008747 G-X-G motif; other site 338966008748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966008749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008750 active site 338966008751 phosphorylation site [posttranslational modification] 338966008752 intermolecular recognition site; other site 338966008753 dimerization interface [polypeptide binding]; other site 338966008754 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966008755 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966008756 dimer interface [polypeptide binding]; other site 338966008757 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966008758 putative CheW interface [polypeptide binding]; other site 338966008759 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338966008760 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 338966008761 anti sigma factor interaction site; other site 338966008762 regulatory phosphorylation site [posttranslational modification]; other site 338966008763 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966008764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008765 active site 338966008766 phosphorylation site [posttranslational modification] 338966008767 intermolecular recognition site; other site 338966008768 dimerization interface [polypeptide binding]; other site 338966008769 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 338966008770 DNA binding residues [nucleotide binding] 338966008771 dimerization interface [polypeptide binding]; other site 338966008772 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 338966008773 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966008774 putative active site [active] 338966008775 heme pocket [chemical binding]; other site 338966008776 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 338966008777 putative active site [active] 338966008778 heme pocket [chemical binding]; other site 338966008779 GAF domain; Region: GAF_2; pfam13185 338966008780 GAF domain; Region: GAF_3; pfam13492 338966008781 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 338966008782 heme pocket [chemical binding]; other site 338966008783 putative active site [active] 338966008784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966008785 Histidine kinase; Region: HisKA_3; pfam07730 338966008786 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 338966008787 ATP binding site [chemical binding]; other site 338966008788 Mg2+ binding site [ion binding]; other site 338966008789 G-X-G motif; other site 338966008790 Ferrochelatase; Region: Ferrochelatase; pfam00762 338966008791 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 338966008792 C-terminal domain interface [polypeptide binding]; other site 338966008793 active site 338966008794 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 338966008795 active site 338966008796 N-terminal domain interface [polypeptide binding]; other site 338966008797 PAS fold; Region: PAS_3; pfam08447 338966008798 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966008799 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008801 metal binding site [ion binding]; metal-binding site 338966008802 active site 338966008803 I-site; other site 338966008804 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 338966008805 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008807 active site 338966008808 phosphorylation site [posttranslational modification] 338966008809 intermolecular recognition site; other site 338966008810 dimerization interface [polypeptide binding]; other site 338966008811 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008812 GAF domain; Region: GAF_2; pfam13185 338966008813 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966008814 PAS domain; Region: PAS; smart00091 338966008815 PAS fold; Region: PAS_3; pfam08447 338966008816 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 338966008817 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966008818 putative active site [active] 338966008819 heme pocket [chemical binding]; other site 338966008820 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 338966008821 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 338966008822 putative active site [active] 338966008823 heme pocket [chemical binding]; other site 338966008824 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 338966008825 dimer interface [polypeptide binding]; other site 338966008826 phosphorylation site [posttranslational modification] 338966008827 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 338966008828 ATP binding site [chemical binding]; other site 338966008829 Mg2+ binding site [ion binding]; other site 338966008830 G-X-G motif; other site 338966008831 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008833 active site 338966008834 phosphorylation site [posttranslational modification] 338966008835 intermolecular recognition site; other site 338966008836 dimerization interface [polypeptide binding]; other site 338966008837 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966008838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008839 active site 338966008840 phosphorylation site [posttranslational modification] 338966008841 intermolecular recognition site; other site 338966008842 dimerization interface [polypeptide binding]; other site 338966008843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966008844 Zn2+ binding site [ion binding]; other site 338966008845 Mg2+ binding site [ion binding]; other site 338966008846 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008848 active site 338966008849 phosphorylation site [posttranslational modification] 338966008850 intermolecular recognition site; other site 338966008851 dimerization interface [polypeptide binding]; other site 338966008852 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 338966008853 PAS domain; Region: PAS_9; pfam13426 338966008854 PAS domain S-box; Region: sensory_box; TIGR00229 338966008855 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 338966008856 putative active site [active] 338966008857 heme pocket [chemical binding]; other site 338966008858 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 338966008859 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966008860 putative active site [active] 338966008861 heme pocket [chemical binding]; other site 338966008862 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 338966008863 dimer interface [polypeptide binding]; other site 338966008864 phosphorylation site [posttranslational modification] 338966008865 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 338966008866 ATP binding site [chemical binding]; other site 338966008867 Mg2+ binding site [ion binding]; other site 338966008868 G-X-G motif; other site 338966008869 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008871 active site 338966008872 phosphorylation site [posttranslational modification] 338966008873 intermolecular recognition site; other site 338966008874 dimerization interface [polypeptide binding]; other site 338966008875 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 338966008876 putative active site [active] 338966008877 PAS fold; Region: PAS_3; pfam08447 338966008878 heme pocket [chemical binding]; other site 338966008879 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 338966008880 dimer interface [polypeptide binding]; other site 338966008881 phosphorylation site [posttranslational modification] 338966008882 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 338966008883 ATP binding site [chemical binding]; other site 338966008884 Mg2+ binding site [ion binding]; other site 338966008885 G-X-G motif; other site 338966008886 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966008887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008888 active site 338966008889 phosphorylation site [posttranslational modification] 338966008890 intermolecular recognition site; other site 338966008891 PAS domain S-box; Region: sensory_box; TIGR00229 338966008892 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 338966008893 putative active site [active] 338966008894 heme pocket [chemical binding]; other site 338966008895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966008896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966008897 metal binding site [ion binding]; metal-binding site 338966008898 active site 338966008899 I-site; other site 338966008900 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 338966008901 Response regulator receiver domain; Region: Response_reg; pfam00072 338966008902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966008903 active site 338966008904 phosphorylation site [posttranslational modification] 338966008905 intermolecular recognition site; other site 338966008906 GAF domain; Region: GAF_2; pfam13185 338966008907 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966008908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966008909 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 338966008910 dimer interface [polypeptide binding]; other site 338966008911 phosphorylation site [posttranslational modification] 338966008912 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 338966008913 ATP binding site [chemical binding]; other site 338966008914 Mg2+ binding site [ion binding]; other site 338966008915 G-X-G motif; other site 338966008916 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 338966008917 substrate binding site [chemical binding]; other site 338966008918 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 338966008919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966008920 active site 338966008921 Transcriptional regulator; Region: Rrf2; cl17282 338966008922 Rrf2 family protein; Region: rrf2_super; TIGR00738 338966008923 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 338966008924 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 338966008925 ATP binding site [chemical binding]; other site 338966008926 putative Mg++ binding site [ion binding]; other site 338966008927 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 338966008928 nucleotide binding region [chemical binding]; other site 338966008929 ATP-binding site [chemical binding]; other site 338966008930 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 338966008931 L-lactate permease; Region: Lactate_perm; cl00701 338966008932 L-lactate permease; Region: Lactate_perm; cl00701 338966008933 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 338966008934 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 338966008935 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 338966008936 NAD(P) binding site [chemical binding]; other site 338966008937 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 338966008938 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 338966008939 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 338966008940 S-adenosylmethionine binding site [chemical binding]; other site 338966008941 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966008942 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 338966008943 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966008944 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966008945 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 338966008946 DNA binding residues [nucleotide binding] 338966008947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966008948 active site 338966008949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966008950 Predicted permeases [General function prediction only]; Region: COG0795 338966008951 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966008952 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 338966008953 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 338966008954 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 338966008955 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 338966008956 putative active site [active] 338966008957 putative metal binding site [ion binding]; other site 338966008958 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 338966008959 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 338966008960 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966008961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966008962 Walker A/P-loop; other site 338966008963 ATP binding site [chemical binding]; other site 338966008964 Q-loop/lid; other site 338966008965 ABC transporter signature motif; other site 338966008966 Walker B; other site 338966008967 D-loop; other site 338966008968 H-loop/switch region; other site 338966008969 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966008970 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966008971 PLD-like domain; Region: PLDc_2; pfam13091 338966008972 putative active site [active] 338966008973 catalytic site [active] 338966008974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966008975 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 338966008976 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 338966008977 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 338966008978 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966008979 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 338966008980 FeS/SAM binding site; other site 338966008981 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 338966008982 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 338966008983 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966008984 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966008985 Probable Catalytic site; other site 338966008986 metal-binding site 338966008987 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 338966008988 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 338966008989 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966008990 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 338966008991 active site 338966008992 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 338966008993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966008994 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 338966008995 putative ADP-binding pocket [chemical binding]; other site 338966008996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966008997 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966008998 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966008999 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 338966009000 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 338966009001 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 338966009002 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 338966009003 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 338966009004 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 338966009005 catalytic residue [active] 338966009006 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 338966009007 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 338966009008 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966009009 putative NAD(P) binding site [chemical binding]; other site 338966009010 active site 338966009011 acyl-CoA synthetase; Validated; Region: PRK09192 338966009012 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 338966009013 acyl-activating enzyme (AAE) consensus motif; other site 338966009014 active site 338966009015 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 338966009016 nucleotide binding site/active site [active] 338966009017 HIT family signature motif; other site 338966009018 catalytic residue [active] 338966009019 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 338966009020 active site 338966009021 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 338966009022 active site 338966009023 metal-binding site 338966009024 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 338966009025 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 338966009026 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 338966009027 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 338966009028 dimerization interface [polypeptide binding]; other site 338966009029 ATP binding site [chemical binding]; other site 338966009030 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 338966009031 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 338966009032 HupF/HypC family; Region: HupF_HypC; pfam01455 338966009033 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 338966009034 Acylphosphatase; Region: Acylphosphatase; pfam00708 338966009035 HypF finger; Region: zf-HYPF; pfam07503 338966009036 HypF finger; Region: zf-HYPF; pfam07503 338966009037 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 338966009038 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338966009039 G4 box; other site 338966009040 G5 box; other site 338966009041 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 338966009042 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 338966009043 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 338966009044 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966009045 4Fe-4S binding domain; Region: Fer4; pfam00037 338966009046 NADH dehydrogenase; Region: NADHdh; cl00469 338966009047 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 338966009048 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338966009049 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338966009050 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 338966009051 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966009052 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 338966009053 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 338966009054 FAD binding pocket [chemical binding]; other site 338966009055 FAD binding motif [chemical binding]; other site 338966009056 phosphate binding motif [ion binding]; other site 338966009057 beta-alpha-beta structure motif; other site 338966009058 NAD binding pocket [chemical binding]; other site 338966009059 Iron coordination center [ion binding]; other site 338966009060 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 338966009061 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 338966009062 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 338966009063 molybdopterin cofactor binding site; other site 338966009064 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 338966009065 molybdopterin cofactor binding site; other site 338966009066 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 338966009067 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966009068 4Fe-4S binding domain; Region: Fer4; pfam00037 338966009069 NADH dehydrogenase; Region: NADHdh; cl00469 338966009070 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 338966009071 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338966009072 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338966009073 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 338966009074 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966009075 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 338966009076 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 338966009077 nickel binding site [ion binding]; other site 338966009078 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 338966009079 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 338966009080 FAD binding pocket [chemical binding]; other site 338966009081 FAD binding motif [chemical binding]; other site 338966009082 phosphate binding motif [ion binding]; other site 338966009083 beta-alpha-beta structure motif; other site 338966009084 NAD binding pocket [chemical binding]; other site 338966009085 Iron coordination center [ion binding]; other site 338966009086 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 338966009087 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 338966009088 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 338966009089 molybdopterin cofactor binding site; other site 338966009090 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 338966009091 molybdopterin cofactor binding site; other site 338966009092 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 338966009093 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 338966009094 active site 338966009095 metal binding site [ion binding]; metal-binding site 338966009096 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 338966009097 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 338966009098 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 338966009099 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 338966009100 ring oligomerisation interface [polypeptide binding]; other site 338966009101 ATP/Mg binding site [chemical binding]; other site 338966009102 stacking interactions; other site 338966009103 hinge regions; other site 338966009104 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 338966009105 oligomerisation interface [polypeptide binding]; other site 338966009106 mobile loop; other site 338966009107 roof hairpin; other site 338966009108 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 338966009109 homotrimer interface [polypeptide binding]; other site 338966009110 Walker A motif; other site 338966009111 GTP binding site [chemical binding]; other site 338966009112 Walker B motif; other site 338966009113 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 338966009114 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 338966009115 putative dimer interface [polypeptide binding]; other site 338966009116 active site pocket [active] 338966009117 putative cataytic base [active] 338966009118 cobalamin synthase; Reviewed; Region: cobS; PRK00235 338966009119 aminodeoxychorismate synthase; Provisional; Region: PRK07508 338966009120 chorismate binding enzyme; Region: Chorismate_bind; cl10555 338966009121 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 338966009122 hypothetical protein; Provisional; Region: PRK07546 338966009123 substrate-cofactor binding pocket; other site 338966009124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009125 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 338966009126 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 338966009127 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966009128 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966009129 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 338966009130 dimerization interface [polypeptide binding]; other site 338966009131 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 338966009132 dimer interface [polypeptide binding]; other site 338966009133 phosphorylation site [posttranslational modification] 338966009134 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 338966009135 ATP binding site [chemical binding]; other site 338966009136 Mg2+ binding site [ion binding]; other site 338966009137 G-X-G motif; other site 338966009138 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966009139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009140 active site 338966009141 phosphorylation site [posttranslational modification] 338966009142 intermolecular recognition site; other site 338966009143 dimerization interface [polypeptide binding]; other site 338966009144 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 338966009145 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 338966009146 PYR/PP interface [polypeptide binding]; other site 338966009147 dimer interface [polypeptide binding]; other site 338966009148 TPP binding site [chemical binding]; other site 338966009149 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 338966009150 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 338966009151 TPP-binding site [chemical binding]; other site 338966009152 dimer interface [polypeptide binding]; other site 338966009153 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 338966009154 catalytic core [active] 338966009155 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 338966009156 active site 338966009157 transcription factor S, archaeal; Region: TFS_arch; TIGR01384 338966009158 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 338966009159 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966009160 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 338966009161 aconitate hydratase 2; Provisional; Region: PLN00094 338966009162 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 338966009163 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 338966009164 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 338966009165 B12 binding site [chemical binding]; other site 338966009166 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 338966009167 FeS/SAM binding site; other site 338966009168 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 338966009169 putative active site [active] 338966009170 YdjC motif; other site 338966009171 Mg binding site [ion binding]; other site 338966009172 putative homodimer interface [polypeptide binding]; other site 338966009173 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 338966009174 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 338966009175 pyrroline-5-carboxylate reductase; Region: PLN02688 338966009176 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 338966009177 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 338966009178 FAD binding pocket [chemical binding]; other site 338966009179 FAD binding motif [chemical binding]; other site 338966009180 phosphate binding motif [ion binding]; other site 338966009181 beta-alpha-beta structure motif; other site 338966009182 NAD binding pocket [chemical binding]; other site 338966009183 Iron coordination center [ion binding]; other site 338966009184 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 338966009185 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 338966009186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966009187 PilZ domain; Region: PilZ; pfam07238 338966009188 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 338966009189 Transcriptional regulator [Transcription]; Region: IclR; COG1414 338966009190 Bacterial transcriptional regulator; Region: IclR; pfam01614 338966009191 DNA polymerase I; Provisional; Region: PRK05755 338966009192 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 338966009193 active site 338966009194 metal binding site 1 [ion binding]; metal-binding site 338966009195 putative 5' ssDNA interaction site; other site 338966009196 metal binding site 3; metal-binding site 338966009197 metal binding site 2 [ion binding]; metal-binding site 338966009198 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 338966009199 putative DNA binding site [nucleotide binding]; other site 338966009200 putative metal binding site [ion binding]; other site 338966009201 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 338966009202 active site 338966009203 catalytic site [active] 338966009204 substrate binding site [chemical binding]; other site 338966009205 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 338966009206 active site 338966009207 DNA binding site [nucleotide binding] 338966009208 catalytic site [active] 338966009209 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 338966009210 BON domain; Region: BON; pfam04972 338966009211 BON domain; Region: BON; pfam04972 338966009212 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 338966009213 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 338966009214 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 338966009215 S-adenosylmethionine binding site [chemical binding]; other site 338966009216 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 338966009217 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966009218 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 338966009219 Walker A/P-loop; other site 338966009220 ATP binding site [chemical binding]; other site 338966009221 Q-loop/lid; other site 338966009222 ABC transporter signature motif; other site 338966009223 Walker B; other site 338966009224 D-loop; other site 338966009225 H-loop/switch region; other site 338966009226 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 338966009227 dimer interface [polypeptide binding]; other site 338966009228 conserved gate region; other site 338966009229 putative PBP binding loops; other site 338966009230 ABC-ATPase subunit interface; other site 338966009231 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 338966009232 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 338966009233 dimer interface [polypeptide binding]; other site 338966009234 conserved gate region; other site 338966009235 putative PBP binding loops; other site 338966009236 ABC-ATPase subunit interface; other site 338966009237 PBP superfamily domain; Region: PBP_like_2; cl17296 338966009238 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 338966009239 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966009240 phosphoenolpyruvate synthase; Validated; Region: PRK06464 338966009241 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966009242 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338966009243 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338966009244 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 338966009245 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 338966009246 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 338966009247 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 338966009248 Interdomain contacts; other site 338966009249 Cytokine receptor motif; other site 338966009250 AAA domain; Region: AAA_22; pfam13401 338966009251 Integrase core domain; Region: rve; pfam00665 338966009252 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 338966009253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 338966009254 Integrase core domain; Region: rve; pfam00665 338966009255 transposase/IS protein; Provisional; Region: PRK09183 338966009256 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 338966009257 Walker A motif; other site 338966009258 ATP binding site [chemical binding]; other site 338966009259 Walker B motif; other site 338966009260 arginine finger; other site 338966009261 Transposase IS200 like; Region: Y1_Tnp; pfam01797 338966009262 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 338966009263 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966009264 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966009265 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 338966009266 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 338966009267 Protein of unknown function (DUF354); Region: DUF354; pfam04007 338966009268 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 338966009269 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 338966009270 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 338966009271 NAD synthetase; Reviewed; Region: nadE; PRK00876 338966009272 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 338966009273 homodimer interface [polypeptide binding]; other site 338966009274 NAD binding pocket [chemical binding]; other site 338966009275 ATP binding pocket [chemical binding]; other site 338966009276 Mg binding site [ion binding]; other site 338966009277 active-site loop [active] 338966009278 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 338966009279 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 338966009280 trimer interface [polypeptide binding]; other site 338966009281 active site 338966009282 substrate binding site [chemical binding]; other site 338966009283 CoA binding site [chemical binding]; other site 338966009284 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 338966009285 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966009286 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 338966009287 acyl-activating enzyme (AAE) consensus motif; other site 338966009288 acyl-activating enzyme (AAE) consensus motif; other site 338966009289 putative AMP binding site [chemical binding]; other site 338966009290 putative active site [active] 338966009291 putative CoA binding site [chemical binding]; other site 338966009292 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 338966009293 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 338966009294 active site 338966009295 dimer interface [polypeptide binding]; other site 338966009296 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 338966009297 Ligand Binding Site [chemical binding]; other site 338966009298 Molecular Tunnel; other site 338966009299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966009300 short chain dehydrogenase; Provisional; Region: PRK08251 338966009301 NAD(P) binding site [chemical binding]; other site 338966009302 active site 338966009303 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 338966009304 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 338966009305 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 338966009306 inhibitor-cofactor binding pocket; inhibition site 338966009307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009308 catalytic residue [active] 338966009309 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 338966009310 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 338966009311 putative trimer interface [polypeptide binding]; other site 338966009312 putative active site [active] 338966009313 putative substrate binding site [chemical binding]; other site 338966009314 putative CoA binding site [chemical binding]; other site 338966009315 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338966009316 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 338966009317 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 338966009318 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 338966009319 Bacterial sugar transferase; Region: Bac_transf; pfam02397 338966009320 AAA domain; Region: AAA_31; pfam13614 338966009321 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 338966009322 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 338966009323 Walker A motif; other site 338966009324 ATP binding site [chemical binding]; other site 338966009325 Walker B motif; other site 338966009326 arginine finger; other site 338966009327 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 338966009328 Chain length determinant protein; Region: Wzz; pfam02706 338966009329 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 338966009330 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966009331 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966009332 SLBB domain; Region: SLBB; pfam10531 338966009333 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 338966009334 RNA recognition motif; Region: RRM; smart00360 338966009335 Recombination protein O N terminal; Region: RecO_N; pfam11967 338966009336 DNA repair protein RecO; Region: reco; TIGR00613 338966009337 Recombination protein O C terminal; Region: RecO_C; pfam02565 338966009338 FtsH Extracellular; Region: FtsH_ext; pfam06480 338966009339 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 338966009340 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 338966009341 Walker B motif; other site 338966009342 arginine finger; other site 338966009343 Peptidase family M41; Region: Peptidase_M41; pfam01434 338966009344 succinic semialdehyde dehydrogenase; Region: PLN02278 338966009345 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 338966009346 tetramerization interface [polypeptide binding]; other site 338966009347 NAD(P) binding site [chemical binding]; other site 338966009348 catalytic residues [active] 338966009349 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 338966009350 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966009351 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 338966009352 motif II; other site 338966009353 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 338966009354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 338966009355 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 338966009356 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 338966009357 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 338966009358 catalytic triad [active] 338966009359 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 338966009360 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 338966009361 S-adenosylmethionine binding site [chemical binding]; other site 338966009362 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 338966009363 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 338966009364 NAD binding site [chemical binding]; other site 338966009365 homotetramer interface [polypeptide binding]; other site 338966009366 homodimer interface [polypeptide binding]; other site 338966009367 substrate binding site [chemical binding]; other site 338966009368 active site 338966009369 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 338966009370 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 338966009371 HflX GTPase family; Region: HflX; cd01878 338966009372 G1 box; other site 338966009373 GTP/Mg2+ binding site [chemical binding]; other site 338966009374 Switch I region; other site 338966009375 G2 box; other site 338966009376 G3 box; other site 338966009377 Switch II region; other site 338966009378 G4 box; other site 338966009379 G5 box; other site 338966009380 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338966009381 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 338966009382 putative active site [active] 338966009383 putative metal binding site [ion binding]; other site 338966009384 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 338966009385 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 338966009386 Domain of unknown function DUF20; Region: UPF0118; pfam01594 338966009387 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 338966009388 metal-binding site [ion binding] 338966009389 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 338966009390 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 338966009391 metal-binding site [ion binding] 338966009392 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966009393 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 338966009394 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 338966009395 dimer interface [polypeptide binding]; other site 338966009396 catalytic triad [active] 338966009397 peroxidatic and resolving cysteines [active] 338966009398 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 338966009399 putative active site [active] 338966009400 putative CoA binding site [chemical binding]; other site 338966009401 nudix motif; other site 338966009402 metal binding site [ion binding]; metal-binding site 338966009403 hypothetical protein; Provisional; Region: PRK11239 338966009404 Protein of unknown function, DUF480; Region: DUF480; pfam04337 338966009405 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 338966009406 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 338966009407 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966009408 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338966009409 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 338966009410 Walker A/P-loop; other site 338966009411 ATP binding site [chemical binding]; other site 338966009412 Q-loop/lid; other site 338966009413 ABC transporter signature motif; other site 338966009414 Walker B; other site 338966009415 D-loop; other site 338966009416 H-loop/switch region; other site 338966009417 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 338966009418 Walker A/P-loop; other site 338966009419 ATP binding site [chemical binding]; other site 338966009420 Q-loop/lid; other site 338966009421 ABC transporter signature motif; other site 338966009422 Walker B; other site 338966009423 D-loop; other site 338966009424 H-loop/switch region; other site 338966009425 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338966009426 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 338966009427 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 338966009428 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 338966009429 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 338966009430 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 338966009431 GAF domain; Region: GAF_2; pfam13185 338966009432 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966009433 PAS domain S-box; Region: sensory_box; TIGR00229 338966009434 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 338966009435 putative active site [active] 338966009436 heme pocket [chemical binding]; other site 338966009437 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009438 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 338966009439 dimer interface [polypeptide binding]; other site 338966009440 phosphorylation site [posttranslational modification] 338966009441 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 338966009442 ATP binding site [chemical binding]; other site 338966009443 Mg2+ binding site [ion binding]; other site 338966009444 G-X-G motif; other site 338966009445 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009447 active site 338966009448 phosphorylation site [posttranslational modification] 338966009449 intermolecular recognition site; other site 338966009450 dimerization interface [polypeptide binding]; other site 338966009451 SlyX; Region: SlyX; pfam04102 338966009452 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966009453 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 338966009454 S-adenosylmethionine binding site [chemical binding]; other site 338966009455 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 338966009456 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 338966009457 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 338966009458 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 338966009459 FMN binding site [chemical binding]; other site 338966009460 active site 338966009461 catalytic residues [active] 338966009462 substrate binding site [chemical binding]; other site 338966009463 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 338966009464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966009465 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 338966009466 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 338966009467 Predicted membrane protein [Function unknown]; Region: COG2860 338966009468 UPF0126 domain; Region: UPF0126; pfam03458 338966009469 UPF0126 domain; Region: UPF0126; pfam03458 338966009470 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 338966009471 serine/threonine protein kinase; Provisional; Region: PRK11768 338966009472 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 338966009473 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966009474 Domain of unknown function (DUF309); Region: DUF309; pfam03745 338966009475 FRG domain; Region: FRG; pfam08867 338966009476 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 338966009477 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 338966009478 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 338966009479 HlyD family secretion protein; Region: HlyD_2; pfam12700 338966009480 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966009481 Outer membrane efflux protein; Region: OEP; pfam02321 338966009482 Outer membrane efflux protein; Region: OEP; pfam02321 338966009483 Isochorismatase family; Region: Isochorismatase; pfam00857 338966009484 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 338966009485 catalytic triad [active] 338966009486 dimer interface [polypeptide binding]; other site 338966009487 conserved cis-peptide bond; other site 338966009488 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 338966009489 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 338966009490 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 338966009491 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 338966009492 motif II; other site 338966009493 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 338966009494 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 338966009495 active site 338966009496 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 338966009497 MutS domain III; Region: MutS_III; pfam05192 338966009498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966009499 Walker A/P-loop; other site 338966009500 ATP binding site [chemical binding]; other site 338966009501 Q-loop/lid; other site 338966009502 ABC transporter signature motif; other site 338966009503 Walker B; other site 338966009504 D-loop; other site 338966009505 H-loop/switch region; other site 338966009506 Smr domain; Region: Smr; pfam01713 338966009507 RF-1 domain; Region: RF-1; pfam00472 338966009508 EAL domain; Region: EAL; pfam00563 338966009509 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 338966009510 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966009511 putative acyl-acceptor binding pocket; other site 338966009512 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 338966009513 RNA/DNA hybrid binding site [nucleotide binding]; other site 338966009514 active site 338966009515 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 338966009516 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 338966009517 G1 box; other site 338966009518 GTP/Mg2+ binding site [chemical binding]; other site 338966009519 G2 box; other site 338966009520 Switch I region; other site 338966009521 G3 box; other site 338966009522 Switch II region; other site 338966009523 G4 box; other site 338966009524 G5 box; other site 338966009525 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 338966009526 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 338966009527 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 338966009528 FeS/SAM binding site; other site 338966009529 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 338966009530 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 338966009531 active site residue [active] 338966009532 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 338966009533 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 338966009534 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 338966009535 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 338966009536 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966009537 active site 338966009538 NTP binding site [chemical binding]; other site 338966009539 metal binding triad [ion binding]; metal-binding site 338966009540 antibiotic binding site [chemical binding]; other site 338966009541 Protein of unknown function DUF86; Region: DUF86; pfam01934 338966009542 methionine sulfoxide reductase B; Provisional; Region: PRK00222 338966009543 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 338966009544 methionine sulfoxide reductase A; Provisional; Region: PRK14054 338966009545 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966009546 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 338966009547 RNA binding surface [nucleotide binding]; other site 338966009548 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966009549 active site 338966009550 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 338966009551 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 338966009552 putative ligand binding site [chemical binding]; other site 338966009553 putative NAD binding site [chemical binding]; other site 338966009554 catalytic site [active] 338966009555 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 338966009556 malonic semialdehyde reductase; Provisional; Region: PRK10538 338966009557 putative NAD(P) binding site [chemical binding]; other site 338966009558 homodimer interface [polypeptide binding]; other site 338966009559 homotetramer interface [polypeptide binding]; other site 338966009560 active site 338966009561 gamma-glutamyl kinase; Provisional; Region: PRK05429 338966009562 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 338966009563 nucleotide binding site [chemical binding]; other site 338966009564 homotetrameric interface [polypeptide binding]; other site 338966009565 putative phosphate binding site [ion binding]; other site 338966009566 putative allosteric binding site; other site 338966009567 PUA domain; Region: PUA; pfam01472 338966009568 GTPase CgtA; Reviewed; Region: obgE; PRK12299 338966009569 GTP1/OBG; Region: GTP1_OBG; pfam01018 338966009570 Obg GTPase; Region: Obg; cd01898 338966009571 G1 box; other site 338966009572 GTP/Mg2+ binding site [chemical binding]; other site 338966009573 Switch I region; other site 338966009574 G2 box; other site 338966009575 G3 box; other site 338966009576 Switch II region; other site 338966009577 G4 box; other site 338966009578 G5 box; other site 338966009579 Putative exonuclease, RdgC; Region: RdgC; cl01122 338966009580 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338966009581 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338966009582 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 338966009583 protein binding site [polypeptide binding]; other site 338966009584 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 338966009585 protein binding site [polypeptide binding]; other site 338966009586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966009587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009588 active site 338966009589 phosphorylation site [posttranslational modification] 338966009590 intermolecular recognition site; other site 338966009591 dimerization interface [polypeptide binding]; other site 338966009592 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 338966009593 DNA binding site [nucleotide binding] 338966009594 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 338966009595 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 338966009596 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 338966009597 S-adenosylmethionine binding site [chemical binding]; other site 338966009598 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 338966009599 RNA methyltransferase, RsmE family; Region: TIGR00046 338966009600 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 338966009601 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 338966009602 ATP binding site [chemical binding]; other site 338966009603 Mg2+ binding site [ion binding]; other site 338966009604 G-X-G motif; other site 338966009605 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 338966009606 ATP binding site [chemical binding]; other site 338966009607 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 338966009608 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 338966009609 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 338966009610 bacterial Hfq-like; Region: Hfq; cd01716 338966009611 hexamer interface [polypeptide binding]; other site 338966009612 Sm1 motif; other site 338966009613 RNA binding site [nucleotide binding]; other site 338966009614 Sm2 motif; other site 338966009615 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 338966009616 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 338966009617 Protein of unknown function (DUF512); Region: DUF512; pfam04459 338966009618 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 338966009619 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009621 active site 338966009622 phosphorylation site [posttranslational modification] 338966009623 intermolecular recognition site; other site 338966009624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966009625 dimerization interface [polypeptide binding]; other site 338966009626 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 338966009627 dimer interface [polypeptide binding]; other site 338966009628 phosphorylation site [posttranslational modification] 338966009629 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 338966009630 ATP binding site [chemical binding]; other site 338966009631 Mg2+ binding site [ion binding]; other site 338966009632 G-X-G motif; other site 338966009633 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 338966009634 substrate binding site; other site 338966009635 dimer interface; other site 338966009636 Transcriptional regulators [Transcription]; Region: GntR; COG1802 338966009637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 338966009638 DNA-binding site [nucleotide binding]; DNA binding site 338966009639 FCD domain; Region: FCD; pfam07729 338966009640 Ion channel; Region: Ion_trans_2; pfam07885 338966009641 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 338966009642 TrkA-N domain; Region: TrkA_N; pfam02254 338966009643 TrkA-C domain; Region: TrkA_C; pfam02080 338966009644 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 338966009645 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 338966009646 Metal-binding active site; metal-binding site 338966009647 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 338966009648 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 338966009649 NAD binding site [chemical binding]; other site 338966009650 homodimer interface [polypeptide binding]; other site 338966009651 active site 338966009652 substrate binding site [chemical binding]; other site 338966009653 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 338966009654 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 338966009655 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 338966009656 active site clefts [active] 338966009657 zinc binding site [ion binding]; other site 338966009658 dimer interface [polypeptide binding]; other site 338966009659 Isochorismatase family; Region: Isochorismatase; pfam00857 338966009660 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 338966009661 catalytic triad [active] 338966009662 conserved cis-peptide bond; other site 338966009663 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 338966009664 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 338966009665 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; cl17355 338966009666 DNA binding site [nucleotide binding] 338966009667 MgtE intracellular N domain; Region: MgtE_N; smart00924 338966009668 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 338966009669 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 338966009670 Cl binding site [ion binding]; other site 338966009671 oligomer interface [polypeptide binding]; other site 338966009672 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 338966009673 Vitamin K epoxide reductase (VKOR) family in bacteria; Region: VKOR_4; cd12921 338966009674 putative active site [active] 338966009675 redox center [active] 338966009676 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 338966009677 catalytic residues [active] 338966009678 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 338966009679 active site 338966009680 8-oxo-dGMP binding site [chemical binding]; other site 338966009681 nudix motif; other site 338966009682 metal binding site [ion binding]; metal-binding site 338966009683 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 338966009684 tandem repeat interface [polypeptide binding]; other site 338966009685 oligomer interface [polypeptide binding]; other site 338966009686 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 338966009687 active site residues [active] 338966009688 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 338966009689 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 338966009690 catalytic triad [active] 338966009691 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 338966009692 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966009693 Predicted chitinase [General function prediction only]; Region: COG3179 338966009694 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 338966009695 FIST N domain; Region: FIST; pfam08495 338966009696 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966009697 FIST C domain; Region: FIST_C; pfam10442 338966009698 EcsC protein family; Region: EcsC; pfam12787 338966009699 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 338966009700 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 338966009701 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 338966009702 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966009703 FeS/SAM binding site; other site 338966009704 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 338966009705 PAS domain S-box; Region: sensory_box; TIGR00229 338966009706 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 338966009707 putative active site [active] 338966009708 heme pocket [chemical binding]; other site 338966009709 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966009710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966009711 metal binding site [ion binding]; metal-binding site 338966009712 active site 338966009713 I-site; other site 338966009714 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 338966009715 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 338966009716 dimerization interface [polypeptide binding]; other site 338966009717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966009718 dimer interface [polypeptide binding]; other site 338966009719 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966009720 putative CheW interface [polypeptide binding]; other site 338966009721 Cytochrome c552; Region: Cytochrom_C552; pfam02335 338966009722 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 338966009723 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 338966009724 catalytic triad [active] 338966009725 Uncharacterized conserved protein [Function unknown]; Region: COG2353 338966009726 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 338966009727 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966009728 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 338966009729 dimer interface [polypeptide binding]; other site 338966009730 phosphorylation site [posttranslational modification] 338966009731 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 338966009732 ATP binding site [chemical binding]; other site 338966009733 Mg2+ binding site [ion binding]; other site 338966009734 G-X-G motif; other site 338966009735 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 338966009736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 338966009737 active site 338966009738 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 338966009739 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 338966009740 S-adenosylmethionine binding site [chemical binding]; other site 338966009741 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009742 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 338966009743 ATP binding site [chemical binding]; other site 338966009744 Mg2+ binding site [ion binding]; other site 338966009745 G-X-G motif; other site 338966009746 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 338966009747 substrate binding site [chemical binding]; other site 338966009748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009750 active site 338966009751 phosphorylation site [posttranslational modification] 338966009752 intermolecular recognition site; other site 338966009753 dimerization interface [polypeptide binding]; other site 338966009754 PAS domain S-box; Region: sensory_box; TIGR00229 338966009755 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 338966009756 putative active site [active] 338966009757 heme pocket [chemical binding]; other site 338966009758 GAF domain; Region: GAF_2; pfam13185 338966009759 GAF domain; Region: GAF_3; pfam13492 338966009760 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966009761 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 338966009762 putative active site [active] 338966009763 heme pocket [chemical binding]; other site 338966009764 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 338966009765 dimer interface [polypeptide binding]; other site 338966009766 phosphorylation site [posttranslational modification] 338966009767 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 338966009768 ATP binding site [chemical binding]; other site 338966009769 Mg2+ binding site [ion binding]; other site 338966009770 G-X-G motif; other site 338966009771 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009773 active site 338966009774 phosphorylation site [posttranslational modification] 338966009775 intermolecular recognition site; other site 338966009776 dimerization interface [polypeptide binding]; other site 338966009777 hypothetical protein; Provisional; Region: PRK13560 338966009778 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 338966009779 putative active site [active] 338966009780 heme pocket [chemical binding]; other site 338966009781 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 338966009782 putative active site [active] 338966009783 heme pocket [chemical binding]; other site 338966009784 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 338966009785 putative active site [active] 338966009786 heme pocket [chemical binding]; other site 338966009787 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 338966009788 putative active site [active] 338966009789 heme pocket [chemical binding]; other site 338966009790 Histidine kinase; Region: HisKA_2; pfam07568 338966009791 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 338966009792 ATP binding site [chemical binding]; other site 338966009793 Mg2+ binding site [ion binding]; other site 338966009794 G-X-G motif; other site 338966009795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009797 active site 338966009798 phosphorylation site [posttranslational modification] 338966009799 intermolecular recognition site; other site 338966009800 dimerization interface [polypeptide binding]; other site 338966009801 PAS domain S-box; Region: sensory_box; TIGR00229 338966009802 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 338966009803 putative active site [active] 338966009804 heme pocket [chemical binding]; other site 338966009805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 338966009806 Histidine kinase; Region: HisKA_2; pfam07568 338966009807 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 338966009808 ATP binding site [chemical binding]; other site 338966009809 Mg2+ binding site [ion binding]; other site 338966009810 G-X-G motif; other site 338966009811 Response regulator receiver domain; Region: Response_reg; pfam00072 338966009812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009813 active site 338966009814 phosphorylation site [posttranslational modification] 338966009815 intermolecular recognition site; other site 338966009816 dimerization interface [polypeptide binding]; other site 338966009817 PAS domain; Region: PAS; smart00091 338966009818 PAS domain; Region: PAS_9; pfam13426 338966009819 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 338966009820 dimer interface [polypeptide binding]; other site 338966009821 phosphorylation site [posttranslational modification] 338966009822 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 338966009823 ATP binding site [chemical binding]; other site 338966009824 Mg2+ binding site [ion binding]; other site 338966009825 G-X-G motif; other site 338966009826 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 338966009827 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 338966009828 homodimer interface [polypeptide binding]; other site 338966009829 oligonucleotide binding site [chemical binding]; other site 338966009830 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 338966009831 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 338966009832 dimer interface [polypeptide binding]; other site 338966009833 putative anticodon binding site; other site 338966009834 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 338966009835 motif 1; other site 338966009836 active site 338966009837 motif 2; other site 338966009838 motif 3; other site 338966009839 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 338966009840 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966009841 FtsX-like permease family; Region: FtsX; pfam02687 338966009842 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966009843 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966009844 Walker A/P-loop; other site 338966009845 ATP binding site [chemical binding]; other site 338966009846 Q-loop/lid; other site 338966009847 ABC transporter signature motif; other site 338966009848 Walker B; other site 338966009849 D-loop; other site 338966009850 H-loop/switch region; other site 338966009851 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 338966009852 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966009853 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966009854 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966009855 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966009856 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966009857 Surface antigen; Region: Bac_surface_Ag; pfam01103 338966009858 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 338966009859 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 338966009860 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 338966009861 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 338966009862 trimer interface [polypeptide binding]; other site 338966009863 active site 338966009864 UDP-GlcNAc binding site [chemical binding]; other site 338966009865 lipid binding site [chemical binding]; lipid-binding site 338966009866 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 338966009867 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 338966009868 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 338966009869 active site 338966009870 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 338966009871 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 338966009872 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 338966009873 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 338966009874 inhibitor-cofactor binding pocket; inhibition site 338966009875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009876 catalytic residue [active] 338966009877 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 338966009878 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 338966009879 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 338966009880 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338966009881 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 338966009882 Walker A/P-loop; other site 338966009883 ATP binding site [chemical binding]; other site 338966009884 Q-loop/lid; other site 338966009885 ABC transporter signature motif; other site 338966009886 Walker B; other site 338966009887 D-loop; other site 338966009888 H-loop/switch region; other site 338966009889 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 338966009890 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 338966009891 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 338966009892 putative acyl-acceptor binding pocket; other site 338966009893 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 338966009894 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 338966009895 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 338966009896 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 338966009897 Uncharacterized conserved protein [Function unknown]; Region: COG2835 338966009898 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 338966009899 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 338966009900 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966009901 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 338966009902 putative active site [active] 338966009903 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 338966009904 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966009905 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 338966009906 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 338966009907 putative ATP binding site [chemical binding]; other site 338966009908 putative substrate interface [chemical binding]; other site 338966009909 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 338966009910 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 338966009911 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966009912 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966009913 Tetratricopeptide repeat; Region: TPR_6; pfam13174 338966009914 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 338966009915 putative active site pocket [active] 338966009916 4-fold oligomerization interface [polypeptide binding]; other site 338966009917 metal binding residues [ion binding]; metal-binding site 338966009918 3-fold/trimer interface [polypeptide binding]; other site 338966009919 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 338966009920 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 338966009921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966009922 homodimer interface [polypeptide binding]; other site 338966009923 catalytic residue [active] 338966009924 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 338966009925 histidinol dehydrogenase; Region: hisD; TIGR00069 338966009926 NAD binding site [chemical binding]; other site 338966009927 dimerization interface [polypeptide binding]; other site 338966009928 product binding site; other site 338966009929 substrate binding site [chemical binding]; other site 338966009930 zinc binding site [ion binding]; other site 338966009931 catalytic residues [active] 338966009932 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 338966009933 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 338966009934 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 338966009935 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 338966009936 hinge; other site 338966009937 active site 338966009938 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 338966009939 PAS fold; Region: PAS_3; pfam08447 338966009940 putative active site [active] 338966009941 heme pocket [chemical binding]; other site 338966009942 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966009943 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 338966009944 PAS domain; Region: PAS_9; pfam13426 338966009945 putative active site [active] 338966009946 heme pocket [chemical binding]; other site 338966009947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966009948 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 338966009949 dimer interface [polypeptide binding]; other site 338966009950 phosphorylation site [posttranslational modification] 338966009951 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 338966009952 ATP binding site [chemical binding]; other site 338966009953 Mg2+ binding site [ion binding]; other site 338966009954 G-X-G motif; other site 338966009955 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966009956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009957 active site 338966009958 phosphorylation site [posttranslational modification] 338966009959 intermolecular recognition site; other site 338966009960 dimerization interface [polypeptide binding]; other site 338966009961 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 338966009962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966009963 active site 338966009964 phosphorylation site [posttranslational modification] 338966009965 intermolecular recognition site; other site 338966009966 dimerization interface [polypeptide binding]; other site 338966009967 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966009968 Zn2+ binding site [ion binding]; other site 338966009969 Mg2+ binding site [ion binding]; other site 338966009970 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 338966009971 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 338966009972 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 338966009973 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966009974 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966009975 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 338966009976 DNA binding residues [nucleotide binding] 338966009977 DNA primase; Validated; Region: dnaG; PRK05667 338966009978 CHC2 zinc finger; Region: zf-CHC2; pfam01807 338966009979 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 338966009980 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 338966009981 active site 338966009982 metal binding site [ion binding]; metal-binding site 338966009983 interdomain interaction site; other site 338966009984 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 338966009985 Colicin V production protein; Region: Colicin_V; pfam02674 338966009986 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 338966009987 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 338966009988 metal binding site [ion binding]; metal-binding site 338966009989 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 338966009990 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 338966009991 substrate binding site [chemical binding]; other site 338966009992 glutamase interaction surface [polypeptide binding]; other site 338966009993 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 338966009994 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 338966009995 catalytic residues [active] 338966009996 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 338966009997 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 338966009998 putative active site [active] 338966009999 oxyanion strand; other site 338966010000 catalytic triad [active] 338966010001 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 338966010002 dimerization interface [polypeptide binding]; other site 338966010003 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966010004 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966010005 dimer interface [polypeptide binding]; other site 338966010006 putative CheW interface [polypeptide binding]; other site 338966010007 Hemerythrin; Region: Hemerythrin; cd12107 338966010008 Fe binding site [ion binding]; other site 338966010009 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 338966010010 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 338966010011 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 338966010012 dimer interface [polypeptide binding]; other site 338966010013 motif 1; other site 338966010014 active site 338966010015 motif 2; other site 338966010016 motif 3; other site 338966010017 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 338966010018 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 338966010019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966010020 homodimer interface [polypeptide binding]; other site 338966010021 catalytic residue [active] 338966010022 dihydrodipicolinate reductase; Provisional; Region: PRK00048 338966010023 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 338966010024 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 338966010025 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 338966010026 dihydrodipicolinate synthase; Region: dapA; TIGR00674 338966010027 dimer interface [polypeptide binding]; other site 338966010028 active site 338966010029 catalytic residue [active] 338966010030 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 338966010031 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966010032 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 338966010033 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 338966010034 ATP binding site [chemical binding]; other site 338966010035 active site 338966010036 substrate binding site [chemical binding]; other site 338966010037 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 338966010038 Hemerythrin; Region: Hemerythrin; cd12107 338966010039 Fe binding site [ion binding]; other site 338966010040 AAA domain; Region: AAA_32; pfam13654 338966010041 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338966010042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966010043 Zn2+ binding site [ion binding]; other site 338966010044 Mg2+ binding site [ion binding]; other site 338966010045 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 338966010046 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 338966010047 nucleotide binding pocket [chemical binding]; other site 338966010048 K-X-D-G motif; other site 338966010049 catalytic site [active] 338966010050 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 338966010051 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 338966010052 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 338966010053 Dimer interface [polypeptide binding]; other site 338966010054 Uncharacterized conserved protein [Function unknown]; Region: COG4715 338966010055 zinc metallopeptidase RseP; Provisional; Region: PRK10779 338966010056 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 338966010057 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 338966010058 putative dimer interface [polypeptide binding]; other site 338966010059 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 338966010060 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 338966010061 FMN binding site [chemical binding]; other site 338966010062 active site 338966010063 catalytic residues [active] 338966010064 substrate binding site [chemical binding]; other site 338966010065 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966010066 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 338966010067 putative active site [active] 338966010068 heme pocket [chemical binding]; other site 338966010069 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 338966010070 ATP binding site [chemical binding]; other site 338966010071 Mg2+ binding site [ion binding]; other site 338966010072 G-X-G motif; other site 338966010073 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966010074 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010075 active site 338966010076 phosphorylation site [posttranslational modification] 338966010077 intermolecular recognition site; other site 338966010078 dimerization interface [polypeptide binding]; other site 338966010079 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 338966010080 Walker A motif; other site 338966010081 ATP binding site [chemical binding]; other site 338966010082 Walker B motif; other site 338966010083 arginine finger; other site 338966010084 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 338966010085 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 338966010086 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 338966010087 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 338966010088 carboxyltransferase (CT) interaction site; other site 338966010089 biotinylation site [posttranslational modification]; other site 338966010090 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 338966010091 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 338966010092 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 338966010093 oxaloacetate decarboxylase; Provisional; Region: PRK12330 338966010094 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 338966010095 active site 338966010096 catalytic residues [active] 338966010097 metal binding site [ion binding]; metal-binding site 338966010098 homodimer binding site [polypeptide binding]; other site 338966010099 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 338966010100 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 338966010101 23S rRNA interface [nucleotide binding]; other site 338966010102 L3 interface [polypeptide binding]; other site 338966010103 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 338966010104 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 338966010105 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 338966010106 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 338966010107 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 338966010108 GatB domain; Region: GatB_Yqey; smart00845 338966010109 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010111 active site 338966010112 phosphorylation site [posttranslational modification] 338966010113 intermolecular recognition site; other site 338966010114 dimerization interface [polypeptide binding]; other site 338966010115 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 338966010116 putative binding surface; other site 338966010117 active site 338966010118 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 338966010119 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 338966010120 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 338966010121 ATP binding site [chemical binding]; other site 338966010122 Mg2+ binding site [ion binding]; other site 338966010123 G-X-G motif; other site 338966010124 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 338966010125 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 338966010126 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 338966010127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 338966010128 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 338966010129 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 338966010130 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 338966010131 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 338966010132 FeS/SAM binding site; other site 338966010133 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 338966010134 Uncharacterized conserved protein [Function unknown]; Region: COG2006 338966010135 Domain of unknown function (DUF362); Region: DUF362; pfam04015 338966010136 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 338966010137 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 338966010138 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 338966010139 FMN binding site [chemical binding]; other site 338966010140 substrate binding site [chemical binding]; other site 338966010141 putative catalytic residue [active] 338966010142 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 338966010143 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 338966010144 active site 338966010145 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 338966010146 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966010147 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 338966010148 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 338966010149 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 338966010150 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 338966010151 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 338966010152 putative NADP binding site [chemical binding]; other site 338966010153 active site 338966010154 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 338966010155 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 338966010156 active site 338966010157 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 338966010158 active site 338966010159 Acyl transferase domain; Region: Acyl_transf_1; cl08282 338966010160 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 338966010161 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 338966010162 active site 2 [active] 338966010163 active site 1 [active] 338966010164 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 338966010165 active site 1 [active] 338966010166 dimer interface [polypeptide binding]; other site 338966010167 active site 2 [active] 338966010168 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 338966010169 active site 2 [active] 338966010170 dimer interface [polypeptide binding]; other site 338966010171 active site 1 [active] 338966010172 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 338966010173 active site 1 [active] 338966010174 dimer interface [polypeptide binding]; other site 338966010175 active site 2 [active] 338966010176 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 338966010177 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 338966010178 active site 338966010179 haloalkane dehalogenase; Provisional; Region: PRK03592 338966010180 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 338966010181 putative CheA interaction surface; other site 338966010182 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966010183 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 338966010184 dimerization interface [polypeptide binding]; other site 338966010185 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966010186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966010187 dimer interface [polypeptide binding]; other site 338966010188 putative CheW interface [polypeptide binding]; other site 338966010189 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966010190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010191 active site 338966010192 phosphorylation site [posttranslational modification] 338966010193 intermolecular recognition site; other site 338966010194 dimerization interface [polypeptide binding]; other site 338966010195 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 338966010196 Walker A motif; other site 338966010197 ATP binding site [chemical binding]; other site 338966010198 Walker B motif; other site 338966010199 arginine finger; other site 338966010200 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966010201 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 338966010202 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 338966010203 Walker A motif; other site 338966010204 ATP binding site [chemical binding]; other site 338966010205 Walker B motif; other site 338966010206 arginine finger; other site 338966010207 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966010208 acetoin reductases; Region: 23BDH; TIGR02415 338966010209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010210 NAD(P) binding site [chemical binding]; other site 338966010211 active site 338966010212 Sensory domain found in PocR; Region: PocR; pfam10114 338966010213 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966010214 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 338966010215 Ligand Binding Site [chemical binding]; other site 338966010216 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 338966010217 Ligand Binding Site [chemical binding]; other site 338966010218 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 338966010219 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 338966010220 Protein of unknown function (DUF533); Region: DUF533; pfam04391 338966010221 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 338966010222 putative metal binding site [ion binding]; other site 338966010223 peptide synthase; Provisional; Region: PRK09274 338966010224 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 338966010225 acyl-activating enzyme (AAE) consensus motif; other site 338966010226 putative AMP binding site [chemical binding]; other site 338966010227 putative active site [active] 338966010228 putative CoA binding site [chemical binding]; other site 338966010229 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 338966010230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966010231 NAD(P) binding site [chemical binding]; other site 338966010232 active site 338966010233 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 338966010234 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 338966010235 Recombinase; Region: Recombinase; pfam07508 338966010236 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 338966010237 integrase; Provisional; Region: PRK09692 338966010238 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 338966010239 active site 338966010240 Int/Topo IB signature motif; other site 338966010241 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 338966010242 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 338966010243 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 338966010244 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 338966010245 non-specific DNA binding site [nucleotide binding]; other site 338966010246 salt bridge; other site 338966010247 sequence-specific DNA binding site [nucleotide binding]; other site 338966010248 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 338966010249 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 338966010250 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966010251 Walker A motif; other site 338966010252 ATP binding site [chemical binding]; other site 338966010253 Walker B motif; other site 338966010254 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 338966010255 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 338966010256 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 338966010257 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 338966010258 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 338966010259 Cysteine-rich domain; Region: CCG; pfam02754 338966010260 Cysteine-rich domain; Region: CCG; pfam02754 338966010261 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 338966010262 HDOD domain; Region: HDOD; pfam08668 338966010263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 338966010264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966010265 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 338966010266 ATP binding site [chemical binding]; other site 338966010267 Mg2+ binding site [ion binding]; other site 338966010268 G-X-G motif; other site 338966010269 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010270 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010271 active site 338966010272 phosphorylation site [posttranslational modification] 338966010273 intermolecular recognition site; other site 338966010274 dimerization interface [polypeptide binding]; other site 338966010275 PAS domain S-box; Region: sensory_box; TIGR00229 338966010276 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 338966010277 putative active site [active] 338966010278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966010279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010280 metal binding site [ion binding]; metal-binding site 338966010281 active site 338966010282 I-site; other site 338966010283 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 338966010284 Uncharacterized conserved protein [Function unknown]; Region: COG3287 338966010285 FIST N domain; Region: FIST; pfam08495 338966010286 FIST C domain; Region: FIST_C; pfam10442 338966010287 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 338966010288 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 338966010289 V4R domain; Region: V4R; cl15268 338966010290 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 338966010291 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 338966010292 P-loop; other site 338966010293 Magnesium ion binding site [ion binding]; other site 338966010294 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 338966010295 Magnesium ion binding site [ion binding]; other site 338966010296 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 338966010297 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 338966010298 dimerization interface [polypeptide binding]; other site 338966010299 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966010300 dimer interface [polypeptide binding]; other site 338966010301 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 338966010302 putative CheW interface [polypeptide binding]; other site 338966010303 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 338966010304 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 338966010305 Uncharacterized ACR, YagE family COG1723; Region: DUF155; pfam02582 338966010306 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 338966010307 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966010308 putative active site [active] 338966010309 heme pocket [chemical binding]; other site 338966010310 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 338966010311 putative active site [active] 338966010312 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 338966010313 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966010314 putative active site [active] 338966010315 heme pocket [chemical binding]; other site 338966010316 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966010317 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 338966010318 putative active site [active] 338966010319 heme pocket [chemical binding]; other site 338966010320 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 338966010321 dimer interface [polypeptide binding]; other site 338966010322 phosphorylation site [posttranslational modification] 338966010323 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 338966010324 ATP binding site [chemical binding]; other site 338966010325 Mg2+ binding site [ion binding]; other site 338966010326 G-X-G motif; other site 338966010327 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966010328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010329 active site 338966010330 phosphorylation site [posttranslational modification] 338966010331 intermolecular recognition site; other site 338966010332 dimerization interface [polypeptide binding]; other site 338966010333 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966010334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010335 I-site; other site 338966010336 active site 338966010337 metal binding site [ion binding]; metal-binding site 338966010338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 338966010339 SEC-C motif; Region: SEC-C; pfam02810 338966010340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966010341 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010342 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966010343 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 338966010344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010345 active site 338966010346 phosphorylation site [posttranslational modification] 338966010347 intermolecular recognition site; other site 338966010348 dimerization interface [polypeptide binding]; other site 338966010349 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 338966010350 DNA binding site [nucleotide binding] 338966010351 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 338966010352 dimerization interface [polypeptide binding]; other site 338966010353 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 338966010354 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 338966010355 putative active site [active] 338966010356 heme pocket [chemical binding]; other site 338966010357 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 338966010358 dimer interface [polypeptide binding]; other site 338966010359 phosphorylation site [posttranslational modification] 338966010360 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 338966010361 ATP binding site [chemical binding]; other site 338966010362 Mg2+ binding site [ion binding]; other site 338966010363 G-X-G motif; other site 338966010364 PBP superfamily domain; Region: PBP_like_2; cl17296 338966010365 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 338966010366 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 338966010367 dimer interface [polypeptide binding]; other site 338966010368 conserved gate region; other site 338966010369 putative PBP binding loops; other site 338966010370 ABC-ATPase subunit interface; other site 338966010371 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 338966010372 ABC-ATPase subunit interface; other site 338966010373 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 338966010374 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 338966010375 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 338966010376 dimer interface [polypeptide binding]; other site 338966010377 conserved gate region; other site 338966010378 putative PBP binding loops; other site 338966010379 ABC-ATPase subunit interface; other site 338966010380 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 338966010381 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 338966010382 Walker A/P-loop; other site 338966010383 ATP binding site [chemical binding]; other site 338966010384 Q-loop/lid; other site 338966010385 ABC transporter signature motif; other site 338966010386 Walker B; other site 338966010387 D-loop; other site 338966010388 H-loop/switch region; other site 338966010389 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 338966010390 PhoU domain; Region: PhoU; pfam01895 338966010391 PhoU domain; Region: PhoU; pfam01895 338966010392 PAS domain; Region: PAS_9; pfam13426 338966010393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338966010394 Histidine kinase; Region: HisKA_3; pfam07730 338966010395 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 338966010396 ATP binding site [chemical binding]; other site 338966010397 Mg2+ binding site [ion binding]; other site 338966010398 G-X-G motif; other site 338966010399 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966010400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010401 active site 338966010402 phosphorylation site [posttranslational modification] 338966010403 intermolecular recognition site; other site 338966010404 dimerization interface [polypeptide binding]; other site 338966010405 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 338966010406 DNA binding residues [nucleotide binding] 338966010407 dimerization interface [polypeptide binding]; other site 338966010408 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 338966010409 PAS domain; Region: PAS_9; pfam13426 338966010410 putative active site [active] 338966010411 heme pocket [chemical binding]; other site 338966010412 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 338966010413 PAS domain; Region: PAS_9; pfam13426 338966010414 putative active site [active] 338966010415 heme pocket [chemical binding]; other site 338966010416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966010417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010418 metal binding site [ion binding]; metal-binding site 338966010419 active site 338966010420 I-site; other site 338966010421 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 338966010422 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 338966010423 CheB methylesterase; Region: CheB_methylest; pfam01339 338966010424 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 338966010425 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 338966010426 PAS domain; Region: PAS_10; pfam13596 338966010427 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 338966010428 putative active site [active] 338966010429 heme pocket [chemical binding]; other site 338966010430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966010431 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 338966010432 dimer interface [polypeptide binding]; other site 338966010433 phosphorylation site [posttranslational modification] 338966010434 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 338966010435 ATP binding site [chemical binding]; other site 338966010436 Mg2+ binding site [ion binding]; other site 338966010437 G-X-G motif; other site 338966010438 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966010439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010440 active site 338966010441 phosphorylation site [posttranslational modification] 338966010442 intermolecular recognition site; other site 338966010443 dimerization interface [polypeptide binding]; other site 338966010444 argininosuccinate lyase; Provisional; Region: PRK00855 338966010445 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 338966010446 active sites [active] 338966010447 tetramer interface [polypeptide binding]; other site 338966010448 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 338966010449 nudix motif; other site 338966010450 argininosuccinate synthase; Provisional; Region: PRK13820 338966010451 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 338966010452 ANP binding site [chemical binding]; other site 338966010453 Substrate Binding Site II [chemical binding]; other site 338966010454 Substrate Binding Site I [chemical binding]; other site 338966010455 ornithine carbamoyltransferase; Provisional; Region: PRK00779 338966010456 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 338966010457 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 338966010458 acetylornithine aminotransferase; Provisional; Region: PRK02627 338966010459 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 338966010460 inhibitor-cofactor binding pocket; inhibition site 338966010461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966010462 catalytic residue [active] 338966010463 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 338966010464 homohexameric interface [polypeptide binding]; other site 338966010465 feedback inhibition sensing region; other site 338966010466 nucleotide binding site [chemical binding]; other site 338966010467 N-acetyl-L-glutamate binding site [chemical binding]; other site 338966010468 Response regulator receiver domain; Region: Response_reg; pfam00072 338966010469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966010470 active site 338966010471 phosphorylation site [posttranslational modification] 338966010472 intermolecular recognition site; other site 338966010473 dimerization interface [polypeptide binding]; other site 338966010474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966010475 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 338966010476 dimer interface [polypeptide binding]; other site 338966010477 phosphorylation site [posttranslational modification] 338966010478 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 338966010479 ATP binding site [chemical binding]; other site 338966010480 Mg2+ binding site [ion binding]; other site 338966010481 G-X-G motif; other site 338966010482 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 338966010483 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...; Region: AlaRS_core; cd00673 338966010484 motif 1; other site 338966010485 active site 338966010486 motif 2; other site 338966010487 motif 3; other site 338966010488 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 338966010489 DHHA1 domain; Region: DHHA1; pfam02272 338966010490 recombination regulator RecX; Reviewed; Region: recX; PRK00117 338966010491 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 338966010492 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 338966010493 Walker A motif; other site 338966010494 ATP binding site [chemical binding]; other site 338966010495 Walker B motif; other site 338966010496 recombinase A; Provisional; Region: recA; PRK09354 338966010497 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 338966010498 hexamer interface [polypeptide binding]; other site 338966010499 Walker A motif; other site 338966010500 ATP binding site [chemical binding]; other site 338966010501 Walker B motif; other site 338966010502 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 338966010503 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966010504 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 338966010505 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966010506 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 338966010507 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966010508 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966010509 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966010510 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 338966010511 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966010512 4Fe-4S binding domain; Region: Fer4; pfam00037 338966010513 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 338966010514 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 338966010515 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 338966010516 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 338966010517 catalytic loop [active] 338966010518 iron binding site [ion binding]; other site 338966010519 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338966010520 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 338966010521 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 338966010522 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966010523 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 338966010524 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 338966010525 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 338966010526 putative dimer interface [polypeptide binding]; other site 338966010527 [2Fe-2S] cluster binding site [ion binding]; other site 338966010528 NADH dehydrogenase subunit D; Validated; Region: PRK06075 338966010529 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 338966010530 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 338966010531 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 338966010532 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 338966010533 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 338966010534 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 338966010535 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 338966010536 Transglycosylase; Region: Transgly; pfam00912 338966010537 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338966010538 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 338966010539 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 338966010540 RNA binding surface [nucleotide binding]; other site 338966010541 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 338966010542 active site 338966010543 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 338966010544 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 338966010545 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 338966010546 protein binding site [polypeptide binding]; other site 338966010547 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 338966010548 Peptidase family M48; Region: Peptidase_M48; pfam01435 338966010549 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 338966010550 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 338966010551 conserved cys residue [active] 338966010552 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 338966010553 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 338966010554 putative NAD(P) binding site [chemical binding]; other site 338966010555 putative active site [active] 338966010556 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 338966010557 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 338966010558 Eukaryotic phosphomannomutase; Region: PMM; cl17107 338966010559 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 338966010560 motif II; other site 338966010561 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 338966010562 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 338966010563 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 338966010564 Walker A motif; other site 338966010565 ATP binding site [chemical binding]; other site 338966010566 Walker B motif; other site 338966010567 arginine finger; other site 338966010568 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 338966010569 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 338966010570 Permease; Region: Permease; pfam02405 338966010571 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 338966010572 putative active site [active] 338966010573 Methyltransferase domain; Region: Methyltransf_31; pfam13847 338966010574 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 338966010575 S-adenosylmethionine binding site [chemical binding]; other site 338966010576 EVE domain; Region: EVE; pfam01878 338966010577 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 338966010578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966010579 Walker A/P-loop; other site 338966010580 ATP binding site [chemical binding]; other site 338966010581 Q-loop/lid; other site 338966010582 ABC transporter signature motif; other site 338966010583 Walker B; other site 338966010584 D-loop; other site 338966010585 H-loop/switch region; other site 338966010586 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 338966010587 mce related protein; Region: MCE; pfam02470 338966010588 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010589 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010590 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010591 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010592 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010594 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 338966010595 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 338966010596 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 338966010597 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966010598 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 338966010599 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 338966010600 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 338966010601 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 338966010602 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966010603 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 338966010604 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 338966010605 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 338966010606 Ion transport protein; Region: Ion_trans; pfam00520 338966010607 Ion channel; Region: Ion_trans_2; pfam07885 338966010608 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 338966010609 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 338966010610 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 338966010611 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 338966010612 Soluble P-type ATPase [General function prediction only]; Region: COG4087 338966010613 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 338966010614 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010615 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 338966010616 active site 338966010617 CoA binding domain; Region: CoA_binding; cl17356 338966010618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966010619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966010620 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966010621 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 338966010622 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 338966010623 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 338966010624 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 338966010625 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 338966010626 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 338966010627 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 338966010628 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 338966010629 active site 338966010630 SAM binding site [chemical binding]; other site 338966010631 homodimer interface [polypeptide binding]; other site 338966010632 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 338966010633 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 338966010634 HlyD family secretion protein; Region: HlyD_3; pfam13437 338966010635 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 338966010636 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 338966010637 Walker A/P-loop; other site 338966010638 ATP binding site [chemical binding]; other site 338966010639 Q-loop/lid; other site 338966010640 ABC transporter signature motif; other site 338966010641 Walker B; other site 338966010642 D-loop; other site 338966010643 H-loop/switch region; other site 338966010644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 338966010645 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 338966010646 FtsX-like permease family; Region: FtsX; pfam02687 338966010647 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 338966010648 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 338966010649 active site 338966010650 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 338966010651 active site 338966010652 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 338966010653 nucleotide binding site/active site [active] 338966010654 HIT family signature motif; other site 338966010655 catalytic residue [active] 338966010656 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 338966010657 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 338966010658 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 338966010659 PilZ domain; Region: PilZ; pfam07238 338966010660 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 338966010661 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 338966010662 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 338966010663 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 338966010664 substrate binding site [chemical binding]; other site 338966010665 hexamer interface [polypeptide binding]; other site 338966010666 metal binding site [ion binding]; metal-binding site 338966010667 16S rRNA methyltransferase B; Provisional; Region: PRK14902 338966010668 NusB family; Region: NusB; pfam01029 338966010669 putative RNA binding site [nucleotide binding]; other site 338966010670 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 338966010671 S-adenosylmethionine binding site [chemical binding]; other site 338966010672 M48 family peptidase; Provisional; Region: PRK03001 338966010673 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 338966010674 active site 338966010675 multimer interface [polypeptide binding]; other site 338966010676 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 338966010677 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 338966010678 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966010679 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966010680 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 338966010681 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 338966010682 GIY-YIG motif/motif A; other site 338966010683 active site 338966010684 catalytic site [active] 338966010685 putative DNA binding site [nucleotide binding]; other site 338966010686 metal binding site [ion binding]; metal-binding site 338966010687 UvrB/uvrC motif; Region: UVR; pfam02151 338966010688 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 338966010689 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 338966010690 DNA binding site [nucleotide binding] 338966010691 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 338966010692 AAA ATPase domain; Region: AAA_16; pfam13191 338966010693 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 338966010694 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 338966010695 nudix motif; other site 338966010696 FAD binding domain; Region: FAD_binding_4; pfam01565 338966010697 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 338966010698 Maf-like protein; Region: Maf; pfam02545 338966010699 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 338966010700 active site 338966010701 dimer interface [polypeptide binding]; other site 338966010702 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 338966010703 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 338966010704 catalytic residue [active] 338966010705 Domain of unknown function (DUF389); Region: DUF389; pfam04087 338966010706 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 338966010707 Mechanosensitive ion channel; Region: MS_channel; pfam00924 338966010708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966010709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966010710 metal binding site [ion binding]; metal-binding site 338966010711 active site 338966010712 I-site; other site 338966010713 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 338966010714 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 338966010715 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 338966010716 trehalose synthase; Region: treS_nterm; TIGR02456 338966010717 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 338966010718 active site 338966010719 catalytic site [active] 338966010720 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 338966010721 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 338966010722 4-alpha-glucanotransferase; Provisional; Region: PRK14508 338966010723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 338966010724 Family of unknown function (DUF490); Region: DUF490; pfam04357 338966010725 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 338966010726 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 338966010727 Surface antigen; Region: Bac_surface_Ag; pfam01103 338966010728 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 338966010729 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 338966010730 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 338966010731 active site 338966010732 catalytic site [active] 338966010733 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 338966010734 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 338966010735 active site 338966010736 catalytic site [active] 338966010737 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 338966010738 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 338966010739 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 338966010740 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 338966010741 catalytic site [active] 338966010742 active site 338966010743 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 338966010744 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 338966010745 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 338966010746 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 338966010747 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 338966010748 active site 338966010749 homotetramer interface [polypeptide binding]; other site 338966010750 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 338966010751 MarR family; Region: MarR; pfam01047 338966010752 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 338966010753 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 338966010754 Cl- selectivity filter; other site 338966010755 Cl- binding residues [ion binding]; other site 338966010756 pore gating glutamate residue; other site 338966010757 dimer interface [polypeptide binding]; other site 338966010758 futalosine nucleosidase; Region: fut_nucase; TIGR03664 338966010759 putative GTP cyclohydrolase; Provisional; Region: PRK13674 338966010760 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 338966010761 G1 box; other site 338966010762 GTP/Mg2+ binding site [chemical binding]; other site 338966010763 Switch I region; other site 338966010764 G2 box; other site 338966010765 G3 box; other site 338966010766 Switch II region; other site 338966010767 G4 box; other site 338966010768 G5 box; other site 338966010769 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 338966010770 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 338966010771 Peptidase family M48; Region: Peptidase_M48; pfam01435 338966010772 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 338966010773 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 338966010774 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 338966010775 Sulfate transporter family; Region: Sulfate_transp; pfam00916 338966010776 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 338966010777 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 338966010778 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 338966010779 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 338966010780 B12 binding site [chemical binding]; other site 338966010781 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 338966010782 FeS/SAM binding site; other site 338966010783 cell division protein FtsZ; Validated; Region: PRK09330 338966010784 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 338966010785 nucleotide binding site [chemical binding]; other site 338966010786 SulA interaction site; other site 338966010787 cell division protein FtsA; Region: ftsA; TIGR01174 338966010788 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 338966010789 nucleotide binding site [chemical binding]; other site 338966010790 Cell division protein FtsA; Region: FtsA; pfam14450 338966010791 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 338966010792 Cell division protein FtsQ; Region: FtsQ; pfam03799 338966010793 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 338966010794 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 338966010795 ATP-grasp domain; Region: ATP-grasp_4; cl17255 338966010796 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 338966010797 FAD binding domain; Region: FAD_binding_4; pfam01565 338966010798 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 338966010799 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 338966010800 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010801 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010802 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010803 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 338966010804 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 338966010805 active site 338966010806 homodimer interface [polypeptide binding]; other site 338966010807 cell division protein FtsW; Region: ftsW; TIGR02614 338966010808 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 338966010809 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 338966010810 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010811 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010812 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 338966010813 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 338966010814 Mg++ binding site [ion binding]; other site 338966010815 putative catalytic motif [active] 338966010816 putative substrate binding site [chemical binding]; other site 338966010817 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 338966010818 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010819 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010820 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010821 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 338966010822 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 338966010823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 338966010824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 338966010825 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 338966010826 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 338966010827 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 338966010828 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 338966010829 cell division protein FtsL; Region: ftsL_broad; TIGR02209 338966010830 MraW methylase family; Region: Methyltransf_5; cl17771 338966010831 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 338966010832 MraZ protein; Region: MraZ; pfam02381 338966010833 cell division protein MraZ; Reviewed; Region: PRK00326 338966010834 MraZ protein; Region: MraZ; pfam02381 338966010835 Bacterial RNase P class A as predicted by Rfam (RF00010), score 369.10 338966010836 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 338966010837 Haemagglutinin; Region: Hemagglutinin; pfam00509 338966010838 Putative zinc ribbon domain; Region: DUF164; pfam02591 338966010839 Uncharacterized conserved protein [Function unknown]; Region: COG0327 338966010840 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 338966010841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 338966010842 Uncharacterized conserved protein [Function unknown]; Region: COG0327 338966010843 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 338966010844 elongation factor P; Provisional; Region: PRK14578 338966010845 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 338966010846 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 338966010847 RNA binding site [nucleotide binding]; other site 338966010848 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 338966010849 RNA binding site [nucleotide binding]; other site 338966010850 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 338966010851 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 338966010852 active site 338966010853 intersubunit interface [polypeptide binding]; other site 338966010854 zinc binding site [ion binding]; other site 338966010855 Na+ binding site [ion binding]; other site 338966010856 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 338966010857 DHH family; Region: DHH; pfam01368 338966010858 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 338966010859 FOG: CBS domain [General function prediction only]; Region: COG0517 338966010860 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 338966010861 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 338966010862 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 338966010863 active site 338966010864 NTP binding site [chemical binding]; other site 338966010865 metal binding triad [ion binding]; metal-binding site 338966010866 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 338966010867 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 338966010868 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 338966010869 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...; Region: CSP_CDS; cd04458 338966010870 DNA-binding site [nucleotide binding]; DNA binding site 338966010871 RNA-binding motif; other site 338966010872 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 338966010873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966010874 Walker A/P-loop; other site 338966010875 ATP binding site [chemical binding]; other site 338966010876 Q-loop/lid; other site 338966010877 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966010878 ABC transporter signature motif; other site 338966010879 Walker B; other site 338966010880 D-loop; other site 338966010881 ABC transporter; Region: ABC_tran_2; pfam12848 338966010882 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966010883 ABC transporter; Region: ABC_tran_2; pfam12848 338966010884 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 338966010885 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 338966010886 active site 338966010887 HIGH motif; other site 338966010888 dimer interface [polypeptide binding]; other site 338966010889 KMSKS motif; other site 338966010890 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 338966010891 RNA binding surface [nucleotide binding]; other site 338966010892 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 338966010893 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 338966010894 putative active site [active] 338966010895 metal binding site [ion binding]; metal-binding site 338966010896 homodimer binding site [polypeptide binding]; other site 338966010897 phosphodiesterase; Provisional; Region: PRK12704 338966010898 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966010899 Zn2+ binding site [ion binding]; other site 338966010900 Mg2+ binding site [ion binding]; other site 338966010901 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 338966010902 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 338966010903 Cell division protein ZapA; Region: ZapA; cl01146 338966010904 Protein of unknown function (DUF904); Region: DUF904; pfam06005 338966010905 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 338966010906 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 338966010907 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 338966010908 P loop; other site 338966010909 GTP binding site [chemical binding]; other site 338966010910 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 338966010911 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 338966010912 Walker A/P-loop; other site 338966010913 ATP binding site [chemical binding]; other site 338966010914 Q-loop/lid; other site 338966010915 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 338966010916 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 338966010917 Q-loop/lid; other site 338966010918 ABC transporter signature motif; other site 338966010919 Walker B; other site 338966010920 D-loop; other site 338966010921 H-loop/switch region; other site 338966010922 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 338966010923 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 338966010924 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 338966010925 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966010926 ligand binding site [chemical binding]; other site 338966010927 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 338966010928 TolB amino-terminal domain; Region: TolB_N; pfam04052 338966010929 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010930 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010931 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010932 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010933 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 338966010934 TolA protein; Region: tolA_full; TIGR02794 338966010935 TonB C terminal; Region: TonB_2; pfam13103 338966010936 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 338966010937 TolR protein; Region: tolR; TIGR02801 338966010938 TolQ protein; Region: tolQ; TIGR02796 338966010939 Predicted amidohydrolase [General function prediction only]; Region: COG0388 338966010940 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 338966010941 putative active site [active] 338966010942 catalytic triad [active] 338966010943 putative dimer interface [polypeptide binding]; other site 338966010944 thioredoxin reductase; Provisional; Region: PRK10262 338966010945 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 338966010946 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966010947 TPR repeat; Region: TPR_11; pfam13414 338966010948 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 338966010949 binding surface 338966010950 TPR motif; other site 338966010951 TPR repeat; Region: TPR_11; pfam13414 338966010952 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966010953 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 338966010954 TPR motif; other site 338966010955 binding surface 338966010956 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966010957 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 338966010958 binding surface 338966010959 TPR motif; other site 338966010960 TPR repeat; Region: TPR_11; pfam13414 338966010961 TPR repeat; Region: TPR_11; pfam13414 338966010962 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 338966010963 Tetratricopeptide repeat; Region: TPR_12; pfam13424 338966010964 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 338966010965 binding surface 338966010966 TPR motif; other site 338966010967 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 338966010968 TPR motif; other site 338966010969 binding surface 338966010970 Tetratricopeptide repeat; Region: TPR_16; pfam13432 338966010971 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 338966010972 TPR motif; other site 338966010973 binding surface 338966010974 TPR repeat; Region: TPR_11; pfam13414 338966010975 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 338966010976 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 338966010977 binding surface 338966010978 TPR repeat; Region: TPR_11; pfam13414 338966010979 TPR motif; other site 338966010980 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338966010981 Flagellar protein FlbT; Region: FlbT; pfam07378 338966010982 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 338966010983 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966010984 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966010985 Probable Catalytic site; other site 338966010986 metal-binding site 338966010987 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966010988 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 338966010989 Probable Catalytic site; other site 338966010990 metal-binding site 338966010991 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 338966010992 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338966010993 putative metal binding site; other site 338966010994 TPR repeat; Region: TPR_11; pfam13414 338966010995 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 338966010996 TPR motif; other site 338966010997 binding surface 338966010998 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 338966010999 binding surface 338966011000 TPR motif; other site 338966011001 TPR repeat; Region: TPR_11; pfam13414 338966011002 TPR repeat; Region: TPR_11; pfam13414 338966011003 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 338966011004 TPR motif; other site 338966011005 binding surface 338966011006 B12 binding domain; Region: B12-binding; pfam02310 338966011007 B12 binding site [chemical binding]; other site 338966011008 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966011009 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 338966011010 FeS/SAM binding site; other site 338966011011 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966011012 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 338966011013 active site 338966011014 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 338966011015 active site 338966011016 B12 binding domain; Region: B12-binding; pfam02310 338966011017 B12 binding site [chemical binding]; other site 338966011018 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 338966011019 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 338966011020 FeS/SAM binding site; other site 338966011021 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 338966011022 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 338966011023 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 338966011024 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 338966011025 FeS/SAM binding site; other site 338966011026 tungsten cofactor oxidoreducase radical SAM maturase; Region: W_rSAM_matur; TIGR04317 338966011027 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 338966011028 FeS/SAM binding site; other site 338966011029 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 338966011030 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 338966011031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966011032 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 338966011033 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 338966011034 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966011035 FeS/SAM binding site; other site 338966011036 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 338966011037 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 338966011038 extended (e) SDRs; Region: SDR_e; cd08946 338966011039 NAD(P) binding site [chemical binding]; other site 338966011040 substrate binding site [chemical binding]; other site 338966011041 active site 338966011042 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 338966011043 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 338966011044 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 338966011045 inhibitor-cofactor binding pocket; inhibition site 338966011046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966011047 catalytic residue [active] 338966011048 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 338966011049 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 338966011050 NAD binding site [chemical binding]; other site 338966011051 homotetramer interface [polypeptide binding]; other site 338966011052 homodimer interface [polypeptide binding]; other site 338966011053 substrate binding site [chemical binding]; other site 338966011054 active site 338966011055 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 338966011056 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 338966011057 substrate binding site; other site 338966011058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966011059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011060 active site 338966011061 phosphorylation site [posttranslational modification] 338966011062 intermolecular recognition site; other site 338966011063 dimerization interface [polypeptide binding]; other site 338966011064 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 338966011065 Walker A motif; other site 338966011066 ATP binding site [chemical binding]; other site 338966011067 Walker B motif; other site 338966011068 arginine finger; other site 338966011069 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 338966011070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966011071 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 338966011072 dimerization interface [polypeptide binding]; other site 338966011073 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 338966011074 dimer interface [polypeptide binding]; other site 338966011075 phosphorylation site [posttranslational modification] 338966011076 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 338966011077 ATP binding site [chemical binding]; other site 338966011078 Mg2+ binding site [ion binding]; other site 338966011079 G-X-G motif; other site 338966011080 Surface antigen; Region: Bac_surface_Ag; pfam01103 338966011081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 338966011082 Smr domain; Region: Smr; pfam01713 338966011083 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966011084 ligand binding site [chemical binding]; other site 338966011085 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011086 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 338966011087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011088 active site 338966011089 phosphorylation site [posttranslational modification] 338966011090 intermolecular recognition site; other site 338966011091 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 338966011092 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 338966011093 dimer interface [polypeptide binding]; other site 338966011094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 338966011095 catalytic residue [active] 338966011096 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 338966011097 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966011098 acyl-activating enzyme (AAE) consensus motif; other site 338966011099 AMP binding site [chemical binding]; other site 338966011100 active site 338966011101 CoA binding site [chemical binding]; other site 338966011102 Phosphopantetheine attachment site; Region: PP-binding; cl09936 338966011103 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966011104 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011105 metal binding site [ion binding]; metal-binding site 338966011106 active site 338966011107 I-site; other site 338966011108 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 338966011109 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 338966011110 Walker B motif; other site 338966011111 arginine finger; other site 338966011112 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 338966011113 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 338966011114 putative substrate translocation pore; other site 338966011115 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 338966011116 putative acyl-acceptor binding pocket; other site 338966011117 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 338966011118 acyl-activating enzyme (AAE) consensus motif; other site 338966011119 putative AMP binding site [chemical binding]; other site 338966011120 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 338966011121 catalytic residues [active] 338966011122 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 338966011123 hypothetical protein; Provisional; Region: PRK10030 338966011124 CHASE domain; Region: CHASE; cl01369 338966011125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966011126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011127 metal binding site [ion binding]; metal-binding site 338966011128 active site 338966011129 I-site; other site 338966011130 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 338966011131 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 338966011132 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 338966011133 active site 338966011134 HIGH motif; other site 338966011135 nucleotide binding site [chemical binding]; other site 338966011136 active site 338966011137 KMSKS motif; other site 338966011138 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 338966011139 HDOD domain; Region: HDOD; pfam08668 338966011140 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966011141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011142 metal binding site [ion binding]; metal-binding site 338966011143 active site 338966011144 I-site; other site 338966011145 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 338966011146 active site 338966011147 SAM binding site [chemical binding]; other site 338966011148 homodimer interface [polypeptide binding]; other site 338966011149 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 338966011150 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 338966011151 active site 338966011152 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 338966011153 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 338966011154 domain interfaces; other site 338966011155 active site 338966011156 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 338966011157 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 338966011158 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 338966011159 tRNA; other site 338966011160 putative tRNA binding site [nucleotide binding]; other site 338966011161 putative NADP binding site [chemical binding]; other site 338966011162 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 338966011163 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 338966011164 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 338966011165 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 338966011166 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 338966011167 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 338966011168 catalytic residues [active] 338966011169 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 338966011170 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 338966011171 catalytic residues [active] 338966011172 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 338966011173 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 338966011174 dimerization interface 3.5A [polypeptide binding]; other site 338966011175 active site 338966011176 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 338966011177 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 338966011178 dimerization interface [polypeptide binding]; other site 338966011179 domain crossover interface; other site 338966011180 redox-dependent activation switch; other site 338966011181 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 338966011182 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 338966011183 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 338966011184 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 338966011185 NAD(P) binding site [chemical binding]; other site 338966011186 homodimer interface [polypeptide binding]; other site 338966011187 substrate binding site [chemical binding]; other site 338966011188 active site 338966011189 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 338966011190 active site 338966011191 NTP binding site [chemical binding]; other site 338966011192 metal binding triad [ion binding]; metal-binding site 338966011193 antibiotic binding site [chemical binding]; other site 338966011194 Bacterial sugar transferase; Region: Bac_transf; pfam02397 338966011195 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 338966011196 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966011197 DXD motif; other site 338966011198 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 338966011199 B12 binding domain; Region: B12-binding; pfam02310 338966011200 B12 binding site [chemical binding]; other site 338966011201 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 338966011202 FeS/SAM binding site; other site 338966011203 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 338966011204 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 338966011205 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 338966011206 putative active site [active] 338966011207 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 338966011208 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 338966011209 active site 338966011210 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 338966011211 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 338966011212 active site 338966011213 O-Antigen ligase; Region: Wzy_C; cl04850 338966011214 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 338966011215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966011216 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 338966011217 S-adenosylmethionine binding site [chemical binding]; other site 338966011218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 338966011219 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 338966011220 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 338966011221 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 338966011222 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 338966011223 Chain length determinant protein; Region: Wzz; pfam02706 338966011224 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 338966011225 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 338966011226 SLBB domain; Region: SLBB; pfam10531 338966011227 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 338966011228 SLBB domain; Region: SLBB; pfam10531 338966011229 SLBB domain; Region: SLBB; pfam10531 338966011230 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 338966011231 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966011232 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 338966011233 NAD binding site [chemical binding]; other site 338966011234 putative substrate binding site 2 [chemical binding]; other site 338966011235 putative substrate binding site 1 [chemical binding]; other site 338966011236 active site 338966011237 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 338966011238 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 338966011239 NADP-binding site; other site 338966011240 homotetramer interface [polypeptide binding]; other site 338966011241 substrate binding site [chemical binding]; other site 338966011242 homodimer interface [polypeptide binding]; other site 338966011243 active site 338966011244 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966011245 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 338966011246 putative NAD(P) binding site [chemical binding]; other site 338966011247 active site 338966011248 putative substrate binding site [chemical binding]; other site 338966011249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966011250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011251 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966011252 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 338966011253 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 338966011254 active site 338966011255 Catalytic domain of Protein Kinases; Region: PKc; cd00180 338966011256 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 338966011257 active site 338966011258 ATP binding site [chemical binding]; other site 338966011259 substrate binding site [chemical binding]; other site 338966011260 activation loop (A-loop); other site 338966011261 Predicted ATPase [General function prediction only]; Region: COG3899 338966011262 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 338966011263 Walker A motif; other site 338966011264 ATP binding site [chemical binding]; other site 338966011265 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966011266 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 338966011267 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 338966011268 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 338966011269 putative active site [active] 338966011270 heme pocket [chemical binding]; other site 338966011271 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 338966011272 dimer interface [polypeptide binding]; other site 338966011273 phosphorylation site [posttranslational modification] 338966011274 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 338966011275 ATP binding site [chemical binding]; other site 338966011276 Mg2+ binding site [ion binding]; other site 338966011277 G-X-G motif; other site 338966011278 Protein of unknown function (DUF422); Region: DUF422; cl00991 338966011279 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 338966011280 putative hydrolase; Provisional; Region: PRK02113 338966011281 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 338966011282 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338966011283 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 338966011284 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 338966011285 putative homodimer interface [polypeptide binding]; other site 338966011286 putative active site pocket [active] 338966011287 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 338966011288 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 338966011289 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 338966011290 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 338966011291 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 338966011292 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 338966011293 active site 338966011294 substrate binding site [chemical binding]; other site 338966011295 metal binding site [ion binding]; metal-binding site 338966011296 Response regulator receiver domain; Region: Response_reg; pfam00072 338966011297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011298 active site 338966011299 phosphorylation site [posttranslational modification] 338966011300 intermolecular recognition site; other site 338966011301 dimerization interface [polypeptide binding]; other site 338966011302 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 338966011303 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 338966011304 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 338966011305 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 338966011306 binding surface 338966011307 TPR motif; other site 338966011308 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 338966011309 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 338966011310 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 338966011311 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338966011312 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 338966011313 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 338966011314 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 338966011315 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 338966011316 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 338966011317 MgtE intracellular N domain; Region: MgtE_N; smart00924 338966011318 FliG C-terminal domain; Region: FliG_C; pfam01706 338966011319 Flagellar assembly protein FliH; Region: FliH; pfam02108 338966011320 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 338966011321 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 338966011322 Walker A motif/ATP binding site; other site 338966011323 Walker B motif; other site 338966011324 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 338966011325 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 338966011326 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 338966011327 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 338966011328 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 338966011329 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 338966011330 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 338966011331 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338966011332 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338966011333 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 338966011334 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 338966011335 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 338966011336 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 338966011337 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 338966011338 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 338966011339 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 338966011340 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 338966011341 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 338966011342 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 338966011343 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 338966011344 FHIPEP family; Region: FHIPEP; pfam00771 338966011345 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 338966011346 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 338966011347 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 338966011348 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 338966011349 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 338966011350 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 338966011351 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 338966011352 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 338966011353 DNA binding residues [nucleotide binding] 338966011354 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 338966011355 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338966011356 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 338966011357 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 338966011358 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 338966011359 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338966011360 SAF-like; Region: SAF_2; pfam13144 338966011361 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 338966011362 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 338966011363 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 338966011364 Flagellar L-ring protein; Region: FlgH; pfam02107 338966011365 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 338966011366 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 338966011367 Rod binding protein; Region: Rod-binding; pfam10135 338966011368 FlgN protein; Region: FlgN; pfam05130 338966011369 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 338966011370 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 338966011371 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 338966011372 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 338966011373 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 338966011374 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 338966011375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966011376 Coenzyme A binding pocket [chemical binding]; other site 338966011377 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 338966011378 Part of AAA domain; Region: AAA_19; pfam13245 338966011379 Family description; Region: UvrD_C_2; pfam13538 338966011380 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 338966011381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011382 active site 338966011383 phosphorylation site [posttranslational modification] 338966011384 intermolecular recognition site; other site 338966011385 dimerization interface [polypeptide binding]; other site 338966011386 ANTAR domain; Region: ANTAR; pfam03861 338966011387 AAA ATPase domain; Region: AAA_16; pfam13191 338966011388 Bacterial transcriptional activator domain; Region: BTAD; smart01043 338966011389 Response regulator receiver domain; Region: Response_reg; pfam00072 338966011390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011391 active site 338966011392 phosphorylation site [posttranslational modification] 338966011393 intermolecular recognition site; other site 338966011394 dimerization interface [polypeptide binding]; other site 338966011395 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 338966011396 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 338966011397 Radical SAM superfamily; Region: Radical_SAM; pfam04055 338966011398 FeS/SAM binding site; other site 338966011399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 338966011400 Coenzyme A binding pocket [chemical binding]; other site 338966011401 HAMP domain; Region: HAMP; pfam00672 338966011402 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966011403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966011404 dimer interface [polypeptide binding]; other site 338966011405 putative CheW interface [polypeptide binding]; other site 338966011406 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 338966011407 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 338966011408 active site 338966011409 catalytic residues [active] 338966011410 metal binding site [ion binding]; metal-binding site 338966011411 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 338966011412 nitrogenase iron protein; Region: nifH; TIGR01287 338966011413 Nucleotide-binding sites [chemical binding]; other site 338966011414 Walker A motif; other site 338966011415 Switch I region of nucleotide binding site; other site 338966011416 Fe4S4 binding sites [ion binding]; other site 338966011417 Switch II region of nucleotide binding site; other site 338966011418 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 338966011419 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 338966011420 MoFe protein alpha/beta subunit interactions; other site 338966011421 Alpha subunit P cluster binding residues; other site 338966011422 FeMoco binding residues [chemical binding]; other site 338966011423 MoFe protein alpha subunit/Fe protein contacts; other site 338966011424 MoFe protein dimer/ dimer interactions; other site 338966011425 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 338966011426 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 338966011427 MoFe protein beta/alpha subunit interactions; other site 338966011428 Beta subunit P cluster binding residues; other site 338966011429 MoFe protein beta subunit/Fe protein contacts; other site 338966011430 MoFe protein dimer/ dimer interactions; other site 338966011431 flagellar motor protein MotD; Reviewed; Region: PRK09038 338966011432 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 338966011433 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 338966011434 ligand binding site [chemical binding]; other site 338966011435 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 338966011436 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 338966011437 Flagellar protein (FlbD); Region: FlbD; pfam06289 338966011438 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 338966011439 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 338966011440 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 338966011441 thiS-thiF/thiG interaction site; other site 338966011442 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 338966011443 ThiS interaction site; other site 338966011444 putative active site [active] 338966011445 tetramer interface [polypeptide binding]; other site 338966011446 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 338966011447 thiamine phosphate binding site [chemical binding]; other site 338966011448 active site 338966011449 pyrophosphate binding site [ion binding]; other site 338966011450 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 338966011451 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 338966011452 FeS/SAM binding site; other site 338966011453 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966011454 Zn2+ binding site [ion binding]; other site 338966011455 Mg2+ binding site [ion binding]; other site 338966011456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966011457 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011458 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966011459 Response regulator receiver domain; Region: Response_reg; pfam00072 338966011460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011461 active site 338966011462 phosphorylation site [posttranslational modification] 338966011463 intermolecular recognition site; other site 338966011464 dimerization interface [polypeptide binding]; other site 338966011465 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 338966011466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 338966011467 active site 338966011468 phosphorylation site [posttranslational modification] 338966011469 intermolecular recognition site; other site 338966011470 dimerization interface [polypeptide binding]; other site 338966011471 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 338966011472 DNA binding residues [nucleotide binding] 338966011473 dimerization interface [polypeptide binding]; other site 338966011474 PAS fold; Region: PAS_4; pfam08448 338966011475 PAS domain S-box; Region: sensory_box; TIGR00229 338966011476 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 338966011477 putative active site [active] 338966011478 heme pocket [chemical binding]; other site 338966011479 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 338966011480 Histidine kinase; Region: HisKA_3; pfam07730 338966011481 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 338966011482 Mg2+ binding site [ion binding]; other site 338966011483 G-X-G motif; other site 338966011484 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 338966011485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966011486 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 338966011487 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 338966011488 acyl-activating enzyme (AAE) consensus motif; other site 338966011489 acyl-activating enzyme (AAE) consensus motif; other site 338966011490 putative AMP binding site [chemical binding]; other site 338966011491 putative active site [active] 338966011492 putative CoA binding site [chemical binding]; other site 338966011493 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 338966011494 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 338966011495 HIGH motif; other site 338966011496 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 338966011497 active site 338966011498 KMSKS motif; other site 338966011499 excinuclease ABC subunit B; Provisional; Region: PRK05298 338966011500 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 338966011501 ATP binding site [chemical binding]; other site 338966011502 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 338966011503 nucleotide binding region [chemical binding]; other site 338966011504 ATP-binding site [chemical binding]; other site 338966011505 Ultra-violet resistance protein B; Region: UvrB; pfam12344 338966011506 UvrB/uvrC motif; Region: UVR; pfam02151 338966011507 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 338966011508 endonuclease III; Region: ENDO3c; smart00478 338966011509 minor groove reading motif; other site 338966011510 helix-hairpin-helix signature motif; other site 338966011511 substrate binding pocket [chemical binding]; other site 338966011512 active site 338966011513 MarR family; Region: MarR_2; pfam12802 338966011514 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 338966011515 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 338966011516 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 338966011517 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 338966011518 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional; Region: PRK14477 338966011519 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 338966011520 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 338966011521 PAS domain S-box; Region: sensory_box; TIGR00229 338966011522 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966011523 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011524 metal binding site [ion binding]; metal-binding site 338966011525 active site 338966011526 I-site; other site 338966011527 PBP superfamily domain; Region: PBP_like_2; pfam12849 338966011528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 338966011529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 338966011530 metal binding site [ion binding]; metal-binding site 338966011531 active site 338966011532 I-site; other site 338966011533 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 338966011534 Rhomboid family; Region: Rhomboid; pfam01694 338966011535 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 338966011536 Rubredoxin; Region: Rubredoxin; pfam00301 338966011537 iron binding site [ion binding]; other site 338966011538 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 338966011539 iron binding site [ion binding]; other site 338966011540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 338966011541 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 338966011542 glutamate dehydrogenase; Provisional; Region: PRK09414 338966011543 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 338966011544 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 338966011545 NAD(P) binding site [chemical binding]; other site 338966011546 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 338966011547 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 338966011548 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 338966011549 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 338966011550 Ligand Binding Site [chemical binding]; other site 338966011551 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 338966011552 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 338966011553 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 338966011554 active site 338966011555 SAM binding site [chemical binding]; other site 338966011556 homodimer interface [polypeptide binding]; other site 338966011557 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 338966011558 active site 338966011559 putative homodimer interface [polypeptide binding]; other site 338966011560 SAM binding site [chemical binding]; other site 338966011561 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 338966011562 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 338966011563 S-adenosylmethionine binding site [chemical binding]; other site 338966011564 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966011565 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011566 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966011567 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 338966011568 Rubredoxin; Region: Rubredoxin; pfam00301 338966011569 iron binding site [ion binding]; other site 338966011570 Rubrerythrin [Energy production and conversion]; Region: COG1592 338966011571 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 338966011572 diiron binding motif [ion binding]; other site 338966011573 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 338966011574 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 338966011575 G1 box; other site 338966011576 putative GEF interaction site [polypeptide binding]; other site 338966011577 GTP/Mg2+ binding site [chemical binding]; other site 338966011578 Switch I region; other site 338966011579 G2 box; other site 338966011580 G3 box; other site 338966011581 Switch II region; other site 338966011582 G4 box; other site 338966011583 G5 box; other site 338966011584 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 338966011585 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 338966011586 CoA binding domain; Region: CoA_binding_2; pfam13380 338966011587 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 338966011588 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 338966011589 putative catalytic cysteine [active] 338966011590 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 338966011591 heme-binding residues [chemical binding]; other site 338966011592 pyruvate phosphate dikinase; Provisional; Region: PRK09279 338966011593 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 338966011594 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 338966011595 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 338966011596 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 338966011597 AMMECR1; Region: AMMECR1; pfam01871 338966011598 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 338966011599 active site 338966011600 catalytic residues [active] 338966011601 metal binding site [ion binding]; metal-binding site 338966011602 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 338966011603 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 338966011604 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 338966011605 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 338966011606 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 338966011607 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 338966011608 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 338966011609 SLBB domain; Region: SLBB; pfam10531 338966011610 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 338966011611 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 338966011612 4Fe-4S binding domain; Region: Fer4; cl02805 338966011613 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 338966011614 dimer interface [polypeptide binding]; other site 338966011615 [2Fe-2S] cluster binding site [ion binding]; other site 338966011616 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 338966011617 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 338966011618 putative dimer interface [polypeptide binding]; other site 338966011619 [2Fe-2S] cluster binding site [ion binding]; other site 338966011620 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 338966011621 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 338966011622 GTP binding site; other site 338966011623 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 338966011624 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 338966011625 catalytic loop [active] 338966011626 iron binding site [ion binding]; other site 338966011627 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 338966011628 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 338966011629 [4Fe-4S] binding site [ion binding]; other site 338966011630 molybdopterin cofactor binding site; other site 338966011631 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 338966011632 molybdopterin cofactor binding site; other site 338966011633 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 338966011634 nickel binding site [ion binding]; other site 338966011635 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 338966011636 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 338966011637 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 338966011638 NADH:ubiquinone oxidoreductase subunit 1 (chain H) [Energy production and conversion]; Region: NuoH; COG1005 338966011639 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 338966011640 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 338966011641 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 338966011642 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 338966011643 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 338966011644 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 338966011645 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966011646 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966011647 hydrogenase 4 subunit D; Validated; Region: PRK06525 338966011648 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 338966011649 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 338966011650 tetramerization interface [polypeptide binding]; other site 338966011651 active site 338966011652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966011653 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011654 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966011655 pantoate--beta-alanine ligase; Region: panC; TIGR00018 338966011656 Pantoate-beta-alanine ligase; Region: PanC; cd00560 338966011657 active site 338966011658 ATP-binding site [chemical binding]; other site 338966011659 pantoate-binding site; other site 338966011660 HXXH motif; other site 338966011661 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 338966011662 oligomerization interface [polypeptide binding]; other site 338966011663 active site 338966011664 metal binding site [ion binding]; metal-binding site 338966011665 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966011666 GAF domain; Region: GAF; pfam01590 338966011667 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 338966011668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 338966011669 dimer interface [polypeptide binding]; other site 338966011670 putative CheW interface [polypeptide binding]; other site 338966011671 PilZ domain; Region: PilZ; pfam07238 338966011672 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 338966011673 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 338966011674 active site residue [active] 338966011675 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 338966011676 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 338966011677 putative RNA binding site [nucleotide binding]; other site 338966011678 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 338966011679 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 338966011680 Protein of unknown function (DUF445); Region: DUF445; pfam04286 338966011681 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 338966011682 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 338966011683 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 338966011684 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 338966011685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966011686 Walker A/P-loop; other site 338966011687 ATP binding site [chemical binding]; other site 338966011688 Q-loop/lid; other site 338966011689 ABC transporter signature motif; other site 338966011690 Walker B; other site 338966011691 D-loop; other site 338966011692 H-loop/switch region; other site 338966011693 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 338966011694 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 338966011695 Walker A/P-loop; other site 338966011696 ATP binding site [chemical binding]; other site 338966011697 Q-loop/lid; other site 338966011698 ABC transporter signature motif; other site 338966011699 Walker B; other site 338966011700 D-loop; other site 338966011701 H-loop/switch region; other site 338966011702 RF-1 domain; Region: RF-1; pfam00472 338966011703 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 338966011704 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 338966011705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 338966011706 Walker A/P-loop; other site 338966011707 ATP binding site [chemical binding]; other site 338966011708 Q-loop/lid; other site 338966011709 ABC transporter signature motif; other site 338966011710 Walker B; other site 338966011711 D-loop; other site 338966011712 H-loop/switch region; other site 338966011713 ABC transporter; Region: ABC_tran_2; pfam12848 338966011714 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 338966011715 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 338966011716 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 338966011717 TrkA-N domain; Region: TrkA_N; pfam02254 338966011718 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 338966011719 PEP-CTERM motif; Region: VPEP; pfam07589 338966011720 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 338966011721 Helix-turn-helix domain; Region: HTH_28; pfam13518 338966011722 Winged helix-turn helix; Region: HTH_29; pfam13551 338966011723 Winged helix-turn helix; Region: HTH_33; pfam13592 338966011724 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 338966011725 AAA domain; Region: AAA_25; pfam13481 338966011726 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 338966011727 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 338966011728 active site 338966011729 Int/Topo IB signature motif; other site 338966011730 DNA binding site [nucleotide binding] 338966011731 Tim44-like domain; Region: Tim44; pfam04280 338966011732 Uncharacterized conserved protein [Function unknown]; Region: COG1615 338966011733 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 338966011734 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 338966011735 M48 family peptidase; Provisional; Region: PRK03001 338966011736 yybP-ykoY element as predicted by Rfam (RF00080), score 66.34 338966011737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 338966011738 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 338966011739 NAD(P) binding site [chemical binding]; other site 338966011740 active site 338966011741 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 338966011742 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 338966011743 putative active site [active] 338966011744 heme pocket [chemical binding]; other site 338966011745 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 338966011746 PAS fold; Region: PAS_4; pfam08448 338966011747 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 338966011748 putative active site [active] 338966011749 heme pocket [chemical binding]; other site 338966011750 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 338966011751 Sensory domain found in PocR; Region: PocR; pfam10114 338966011752 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 338966011753 PAS domain; Region: PAS_9; pfam13426 338966011754 putative active site [active] 338966011755 heme pocket [chemical binding]; other site 338966011756 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 338966011757 GAF domain; Region: GAF; pfam01590 338966011758 PAS fold; Region: PAS_7; pfam12860 338966011759 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 338966011760 dimer interface [polypeptide binding]; other site 338966011761 phosphorylation site [posttranslational modification] 338966011762 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 338966011763 ATP binding site [chemical binding]; other site 338966011764 Mg2+ binding site [ion binding]; other site 338966011765 G-X-G motif; other site 338966011766 Quinolinate synthetase A protein; Region: NadA; pfam02445 338966011767 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 338966011768 Uncharacterized conserved protein [Function unknown]; Region: COG2006 338966011769 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 338966011770 hybrid cluster protein; Provisional; Region: PRK05290 338966011771 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 338966011772 ACS interaction site; other site 338966011773 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 338966011774 hybrid metal cluster; other site 338966011775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 338966011776 Zn2+ binding site [ion binding]; other site 338966011777 Mg2+ binding site [ion binding]; other site 338966011778 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 338966011779 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 338966011780 FeS/SAM binding site; other site 338966011781 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 338966011782 S-adenosylmethionine binding site [chemical binding]; other site 338966011783 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 338966011784 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 338966011785 NADP binding site [chemical binding]; other site 338966011786 homopentamer interface [polypeptide binding]; other site 338966011787 substrate binding site [chemical binding]; other site 338966011788 active site 338966011789 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 338966011790 hypothetical protein; Reviewed; Region: PRK00024 338966011791 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 338966011792 MPN+ (JAMM) motif; other site 338966011793 Zinc-binding site [ion binding]; other site 338966011794 Bacitracin resistance protein BacA; Region: BacA; pfam02673 338966011795 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 338966011796 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 338966011797 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 338966011798 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 338966011799 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 338966011800 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 338966011801 SurA N-terminal domain; Region: SurA_N_3; cl07813 338966011802 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338966011803 putative peptidyl-prolyl cis-trans isomerase, LIC12922 family; Region: PCisTranLspir; TIGR04142 338966011804 SurA N-terminal domain; Region: SurA_N; pfam09312 338966011805 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 338966011806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 338966011807 phosphorylation site [posttranslational modification] 338966011808 intermolecular recognition site; other site 338966011809 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 338966011810 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 338966011811 putative ribose interaction site [chemical binding]; other site 338966011812 putative ADP binding site [chemical binding]; other site 338966011813 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 338966011814 active site 338966011815 nucleotide binding site [chemical binding]; other site 338966011816 HIGH motif; other site 338966011817 KMSKS motif; other site 338966011818 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 338966011819 dimer interface [polypeptide binding]; other site 338966011820 active site 338966011821 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 338966011822 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 338966011823 active site 338966011824 rod shape-determining protein MreB; Provisional; Region: PRK13927 338966011825 MreB and similar proteins; Region: MreB_like; cd10225 338966011826 nucleotide binding site [chemical binding]; other site 338966011827 Mg binding site [ion binding]; other site 338966011828 putative protofilament interaction site [polypeptide binding]; other site 338966011829 RodZ interaction site [polypeptide binding]; other site 338966011830 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 338966011831 PAS fold; Region: PAS_4; pfam08448 338966011832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 338966011833 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 338966011834 ATP binding site [chemical binding]; other site 338966011835 Mg2+ binding site [ion binding]; other site 338966011836 G-X-G motif; other site 338966011837 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 338966011838 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 338966011839 active site 338966011840 HIGH motif; other site 338966011841 nucleotide binding site [chemical binding]; other site 338966011842 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 338966011843 active site 338966011844 KMSKS motif; other site 338966011845 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 338966011846 tRNA binding surface [nucleotide binding]; other site 338966011847 anticodon binding site; other site 338966011848 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338966011849 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 338966011850 lipoprotein signal peptidase; Provisional; Region: PRK14787 338966011851 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 338966011852 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 338966011853 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 338966011854 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 338966011855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 338966011856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 338966011857 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 338966011858 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 338966011859 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 338966011860 active site 338966011861 substrate-binding site [chemical binding]; other site 338966011862 metal-binding site [ion binding] 338966011863 ATP binding site [chemical binding]; other site 338966011864 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 338966011865 active site 338966011866 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 338966011867 putative active site [active] 338966011868 catalytic site [active] 338966011869 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 338966011870 PLD-like domain; Region: PLDc_2; pfam13091 338966011871 putative active site [active] 338966011872 catalytic site [active] 338966011873 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 338966011874 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 338966011875 DNA binding site [nucleotide binding] 338966011876 catalytic residue [active] 338966011877 H2TH interface [polypeptide binding]; other site 338966011878 putative catalytic residues [active] 338966011879 turnover-facilitating residue; other site 338966011880 intercalation triad [nucleotide binding]; other site 338966011881 8OG recognition residue [nucleotide binding]; other site 338966011882 putative reading head residues; other site 338966011883 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 338966011884 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 338966011885 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 338966011886 putative active site [active] 338966011887 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 338966011888 phosphoglyceromutase; Provisional; Region: PRK05434 338966011889 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 338966011890 Oligomerisation domain; Region: Oligomerisation; pfam02410 338966011891 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 338966011892 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 338966011893 active site 338966011894 (T/H)XGH motif; other site 338966011895 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 338966011896 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 338966011897 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 338966011898 Ligand binding site; other site 338966011899 Putative Catalytic site; other site 338966011900 DXD motif; other site 338966011901 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 338966011902 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 338966011903 catalytic site [active] 338966011904 putative active site [active] 338966011905 putative substrate binding site [chemical binding]; other site 338966011906 HRDC domain; Region: HRDC; pfam00570 338966011907 HRDC domain; Region: HRDC; pfam00570 338966011908 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 338966011909 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 338966011910 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 338966011911 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 338966011912 S-adenosylmethionine binding site [chemical binding]; other site 338966011913 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 338966011914 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 338966011915 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 338966011916 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 338966011917 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 338966011918 trmE is a tRNA modification GTPase; Region: trmE; cd04164 338966011919 G1 box; other site 338966011920 GTP/Mg2+ binding site [chemical binding]; other site 338966011921 Switch I region; other site 338966011922 G2 box; other site 338966011923 Switch II region; other site 338966011924 G3 box; other site 338966011925 G4 box; other site 338966011926 G5 box; other site 338966011927 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 338966011928 membrane protein insertase; Provisional; Region: PRK01318 338966011929 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 338966011930 Haemolytic domain; Region: Haemolytic; pfam01809 338966011931 Ribonuclease P; Region: Ribonuclease_P; pfam00825 338966011932 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399